Download Table S1. Black-capped chickadee (Poecile atricapillus) samples

Table S1. Black-capped chickadee (Poecile atricapillus) samples from Alaska (AK)
and Kansas (KS) used in this study
1
Sample Name1
Chickadee Sex2
Location
AK-1
Female
Anchorage, AK
AK-2
Male
Anchorage, AK
AK-3
Male
Anchorage, AK
AK-4
Male
Anchorage, AK
AK-5
Female
Anchorage, AK
KS-1
Male
Manhattan, KS
KS-2
Female
Manhattan, KS
KS-3
Male
Manhattan, KS
KS-4
Female
Manhattan, KS
KS-5
Female
Manhattan, KS
Hippocampi of black-capped chickadees were combined in a single sample, which
generated a total of 10 biologically independent samples (10 from each bird
population).
2 Each
sample was comprised of two female or two male birds.
Table S2. Summary of sequencing results for each hippocampi tissue sample of
black-capped chickadees from Alaska (AK) and Kansas (KS)
Read Type (2 =
paired end)
Filtered Passing
Reads2
Total Base Pairs
AK-1
2x50nt
32,961,305
3,296,130,500
AK-2
2x50nt
35,794,367
3,579,436,700
AK-3
2x50nt
34,314,977
3,431,497,700
AK-4
2x50nt
37,570,100
3,757,010,000
AK-5
2x50nt
34,568,752
3,456,875,200
KS-1
2x50nt
30,398,435
3,039,843,500
KS-2
2x50nt
22,795,860
2,279,586,000
KS-3
2x50nt
26,171,848
2,617,184,800
KS-4
2x50nt
27,294,543
2,729,454,300
KS-5
2x50nt
25,971,864
2,597,186,400
Sample
1
Name1
Pools of samples AK-1,2,3 (pool 1), AK-4, 5, KS-1 (pool 2), and KS-2, 3, 4, 5 (pool 3).
Pool 1 to 3 were each plexed in one lane of the Illumina HiSeq2000 with average
quality >Q30 (excellent) (see Materials and Methods section).
2
The NCGR post-processing filtering pipeline was used to remove contaminants
such as illlumina primers, adapters and PhIX-control sequences for cleaner data
results (see Materials and Methods).
Table S3. Summary of de-novo assembly and similary searches results of the
hippocampus transcriptome of the black-capped chickadee
Number of assembled consensus sequences (>100 bp)
23,295
Total size of hippocampal transcriptome (bp)
47,563,643
N50 length (bp)
3,180
Average contig length (bp)
2,041
Maximum contig length (bp)
22,801
Protein sequences predicted by ESTScan
16,206
Sequences with BLAST match1
13,982
Genes with a single transcript
12,335
Genes with multiple transcript isoforms2
1,747
1
BLAST against the the non-redundant (NR) database was used to identify genes by
comparing the predicted protein sequences resulting from the ESTScan, and contig
sequences, to other species. The resulting hits (limited to only the one best matching
sequence per query sequence) were filtered for matches with a significant E-value
cut-off of 1e-3 (see Materials and Methods section).
2 Genes
represented by multiple transcript isoforms, which may represent
alternative splicing events resulting in different protein isoforms.
Table S4. GO-term IDs used in this study for functional annotation
Function
Gene Ontology (GO) categories
Neurogenesis nervous system development (GO:0007399); neurogenesis
(GO:0022008); neuron differentiation (GO:0030182);
neuron development (GO:0048666); cell differentiation
(GO:0030154); regulation of neurogenesis (GO:0050767);
negative regulation of neurogenesis (GO:0050768); positive
regulation of neurogenesis (GO:0050769); gliogenesis
(GO:0042063); generation of neurons (GO:0048699);
positive regulation of neuron differentiation (GO:0045666);
negative regulation of neuron differentiation (GO:0045665)
Apoptosis
cell death (GO:0008219); apoptotic process (GO:0006915);
programmed cell death (GO:0012501); positive regulation
of apoptotic process (GO:0043065); positive regulation of
programmed cell death (GO:0043068); positive regulation
of cell death (GO:0010942); induction of apoptosis
(GO:0006917); induction of programmed cell death
(GO:0012502); regulation of apoptotic process
(GO:0042981); regulation of programmed cell death
(GO:0043067); regulation of cell death (GO:0010941);
regulation of neuron apoptotic process (GO:0043523);
neuron apoptotic process (GO:0051402); positive
regulation of neuron apoptotic process (GO:0043525)
Synaptic
synapse (GO:0045202); synapse part (GO:0044456); cell
processes
communication (GO:0007154); transmission of nerve
impulse (GO:0019226); cell-cell signaling (GO:0007267);
synaptic transmission (GO:0007268); negative regulation of
synaptic plasticity (GO:0031914); positive regulation of
synaptic plasticity (GO:0031915); regulation of neuronal
synaptic plasticity (GO:0048168); synapse organization
(GO:0050808); regulation of synapse structural plasticity
(GO:0051823); regulation of synapse structure and activity
(GO:0050803); synapse assembly (GO:0007416); regulation
of synapse organization (GO:0050807); synaptic
transmission (GO:0007268)
Table S5. List of 23,295 assembled candidate transcripts expressed in the
hippocampus of Alaska and Kansas chickadees (Excel spreadsheet).
Table S6. List of 13,982 protein-coding sequences derived from candidate
transcripts with high similarity to other species (Excel spreadsheet).
Table S7. Significant differentially expressed genes between Alaska and Kansas
chickadees
Table S8. List of 484 significant differentially expressed transcripts in the
hippocampus between Alaska and Kansas chickadees with GO-term functional
annotations (Excel spreadsheet).
1 mm
Fig. S1. Chickadee hippocampus
ALASKA
ALASKA
KANSAS
A
-1
K
-2
K
A
-3
K
A
-4
K
A
-5
K
A
-1
S
K
-2
S
K
-3
S
K
-4
S
K
-5
S
K
Transcript ID
avdl_parai-20111027|17869
avdl_parai-20111027|22314
avdl_parai-20111027|15541
avdl_parai-20111027|10813
avdl_parai-20111027|21374
avdl_parai-20111027|22342
avdl_parai-20111027|4357
avdl_parai-20111027|3716
avdl_parai-20111027|3421
avdl_parai-20111027|605
avdl_parai-20111027|13543
avdl_parai-20111027|21343
avdl_parai-20111027|22319
avdl_parai-20111027|17560
avdl_parai-20111027|4136
avdl_parai-20111027|13838
avdl_parai-20111027|3297
avdl_parai-20111027|15389
avdl_parai-20111027|12342
avdl_parai-20111027|1662
avdl_parai-20111027|14873
avdl_parai-20111027|14493
avdl_parai-20111027|19026
avdl_parai-20111027|5819
avdl_parai-20111027|18882
avdl_parai-20111027|3661
avdl_parai-20111027|15084
avdl_parai-20111027|22849
avdl_parai-20111027|9111
avdl_parai-20111027|4738
avdl_parai-20111027|19315
avdl_parai-20111027|15167
avdl_parai-20111027|22657
avdl_parai-20111027|18469
avdl_parai-20111027|15025
KANSAS
ADCY2
ADCY8
AP1
CAMK2A
CAMK2B
CAMK2B
CAMK2G
CREB1
CREBBP
DLG3
DLG4
DLG4
DLG4
EGR1
FYN
GRIA1
GRIA4
GRIN2A
GRIN2B
GRIN3A
GRIN3A
GRM1
GRM4
GRM5
HDAC2
MAP2
MAP2
NCAM1
NF1
NF1
PKCbeta
PKCdelta
PKCepsilon
PPPC1B
RGS14
1.0
0.7
0.3
0.0
-0.3
-0.7
-1.0
Fig. S2 Hippocampal transcriptome profile of genes previously associated with
learning and memory processes. Heat map of normalized RPKM read counts for
genes sequenced from hippocampal tissue of Alaska (AK-1 to 5) and Kansas (KS-1 to
5) chickadees. Multiple transcripts are present in the hippocampal transcriptome
for CAMK2B, RHOT1, and GRIN3A, which may represent different protein isoforms.
In all panels, columns represent independent biological samples, and rows
represent transcript profiles for indicated genes. Expression values represented by
green-to-red color scale indicate up- and downregulation relative to the
experimental mean expression values indicated in black.
Fig. S3 Overview assembly pipeline of pooled and individual assemblies
B
C
25
100000
100000
20
10000
10000
1000
Frequency (log10)
1e+06
Frequency
Frequency (log10)
A
15
10
100
1
0
1
1
10
100
1000
10000
Single base coverage (log10)
100000
100
10
5
10
1000
0
5000
10000
15000
Transcript length
20000
25000
0
2
4
6
8
10
12
Gap percentage
Fig. S4 Summary results of de novo transcriptome assembly. A) Distribution of
coverage for bases in the transcriptome. The single base coverage is the coverage for
a base, and frequency is the number of times a base of that coverage was observed.
As expected, bases with extreme coverage are less frequent, however, it is
interesting to note that bases with 10 and 100 read coverage were more frequent
than single base coverage. B) Distribution of transcript lengths against the
frequency of the number of transcripts at that specific length. C) Gap percentage.
The percentage of the transcript that was constructed as a gap “N”. Gaps are either
ambiguous bases in the case where there is coverage but with different bases, or
scaffolds where pairs of reads on either side indicated what the contigs were
supposed to be connected and what the number of bases were missing. Some
contigs can have large percentage of gaps, however, most contigs were less than a
percent of ambiguous or missing bases.
Table S7. Significant differentially expressed genes between Alaska and Kansas chickadees
389 differentially expressed genes between Alaska (AK) and Kansas (KS) chickadees at P≤0.05
Fold Change
Contig ID
avdl_parai-20111027|4055
Gene Name
TMEM171
avdl_parai-20111027|1241
avdl_parai-20111027|22524
RASGRF1
avdl_parai-20111027|17653
Description
Top Blast Hit
E-value
AK>KS
KS>AK
P-value
transmembrane protein 171-like
XP_002186784
1.70E-134
>100
0.000
0.003
gag-pro-pol-env protein
XP_002193721
0
>100
0.000
0.032
ras-specific guanine nucleotide-releasing factor 1
XP_003641914
0
10.824
0.092
0.033
CAG12609
1.46E-05
5.555
0.180
0.001
unnamed protein product
avdl_parai-20111027|23110
CUTA
cuta divalent cation tolerance homolog isoform cra_a
XP_002816801
4.69E-31
5.171
0.193
0.002
avdl_parai-20111027|22221
PACSIN2
protein kinase c and casein kinase substrate protein 2
XP_002192716
1.66E-170
5.064
0.197
0.007
EGT31791
1.41E-08
4.414
0.227
0.017
titin
XP_003458433
1.70E-06
3.451
0.290
0.010
XP_001515376
0
3.345
0.299
0.003
XP_517937
2.46E-63
3.119
0.321
0.012
avdl_parai-20111027|3014
110 kda antigen
avdl_parai-20111027|23134
TTN
avdl_parai-20111027|22215
PATL1
protein associated with topoisomerase ii homolog 1
avdl_parai-20111027|21930
RPL31
60s ribosomal protein l31-like
avdl_parai-20111027|13757
centromere protein e
XP_001629866
2.80E-08
2.903
0.345
0.017
avdl_parai-20111027|8684
hypothetical protein
XP_001803861
3.52E-05
2.812
0.356
0.003
avdl_parai-20111027|21686
hypothetical protein
XP_001628933
9.90E-16
2.724
0.367
0.034
coiled-coil domain-containing protein 134-like
NP_001232405
6.22E-137
2.515
0.398
0.023
hypothetical protein
XP_001623039
3.17E-11
2.486
0.402
0.004
avdl_parai-20111027|20575
avdl_parai-20111027|12583
CCDC134
avdl_parai-20111027|195
SEC11A
signal peptidase complex catalytic subunit sec11a
NP_001232693
6.27E-112
2.309
0.433
0.010
transmembrane protein 30a
XP_002190339
0
2.294
0.436
0.002
avdl_parai-20111027|19918
TMEM30A
avdl_parai-20111027|14308
ETHE1
ethylmalonic encephalopathy 1
NP_075643
2.86E-91
2.204
0.454
0.028
avdl_parai-20111027|20490
RWDD3
rwd domain-containing protein 3-like
XP_422323
3.53E-136
2.188
0.457
0.001
gag-pro-pol-env protein
XP_002193721
0
2.127
0.470
0.047
avdl_parai-20111027|4915
avdl_parai-20111027|15048
SLMO2
protein slowmo homolog 2-like
XP_003212176
5.88E-112
2.116
0.473
0.001
avdl_parai-20111027|13027
CCDC83
coiled-coil domain containing 83
XP_002189017
1.16E-60
2.113
0.473
0.010
avdl_parai-20111027|5858
AQP3
aquaporin 3
XP_002188557
0
2.101
0.476
0.016
avdl_parai-20111027|13770
uncharacterized protein LOC768893
XP_001232048
1.09E-21
2.099
0.476
0.043
avdl_parai-20111027|9213
pol-partial
BAA88337
1.15E-10
2.096
0.477
0.012
oxidoreductase htatip2
XP_002189007
1.08E-42
2.094
0.478
0.029
upf0585 protein c16orf13 homolog
XP_003230362
1.71E-89
2.078
0.481
0.018
avdl_parai-20111027|21290
HTATIP2
avdl_parai-20111027|18038
avdl_parai-20111027|22484
RNF139
e3 ubiquitin-protein ligase rnf139
XP_002186551
0
2.040
0.490
0.048
avdl_parai-20111027|20964
TMEM100
transmembrane protein 100-like
XP_002198471
3.27E-61
1.875
0.533
0.014
avdl_parai-20111027|21767
DRP2
dystrophin-related protein 2
XP_002187357
0
1.866
0.536
0.008
avdl_parai-20111027|21855
SAT1
spermidine spermine n1-acetyltransferase
ACH44033
6.16E-122
1.856
0.539
0.007
snake venom metalloprotease inhibitor 02a10-like
XP_002190843
3.03E-15
1.798
0.556
0.043
avdl_parai-20111027|3922
avdl_parai-20111027|17507
RAB36
ras-related protein rab-36
XP_002196705
1.43E-175
1.771
0.565
0.020
avdl_parai-20111027|21134
NAT8B
probable n-acetyltransferase 8b-like
XP_001236424
1.12E-47
1.743
0.574
0.018
avdl_parai-20111027|19575
ZNF384
zinc finger protein 384 isoform 3
NP_001072964
0
1.737
0.576
0.048
avdl_parai-20111027|7605
syntaxin-binding protein 4-like
XP_002170178
7.39E-09
1.719
0.582
0.008
NP_001232624
1.72E-64
1.713
0.584
0.013
avdl_parai-20111027|18055
NDUFA6
nadh dehydrogenase
avdl_parai-20111027|21954
RABAC1
rab acceptor 1
EAW57086
9.88E-30
1.693
0.591
0.030
avdl_parai-20111027|20366
KRT23
type i cytoskeletal 23
XP_418167
0
1.682
0.595
0.021
avdl_parai-20111027|18105
EPB41
erythrocyte protein band
BAC86822
3.11E-83
1.670
0.599
0.002
avdl_parai-20111027|21962
ZNF629
zinc finger protein 629
XP_003202582
3.22E-27
1.665
0.601
0.028
avdl_parai-20111027|21742
AGAP3
arf-gap with ank repeat ph domain-containing protein 3
XP_003318963
0
1.648
0.607
0.045
avdl_parai-20111027|4687
transmembrane protein 221-partial
XP_003213330
2.09E-06
1.639
0.610
0.000
avdl_parai-20111027|910
GL19617
XP_002015280
3.50E-05
1.616
0.619
0.044
XP_002190620
0
1.613
0.620
0.022
avdl_parai-20111027|3275
RBL2
retinoblastoma-like protein 2
avdl_parai-20111027|22598
AP180
clathrin coat assembly protein ap180
BAH11808
9.58E-55
1.613
0.620
0.028
avdl_parai-20111027|21715
THUMPD1
thump domain-containing protein 1
XP_002192913
2.23E-88
1.607
0.622
0.000
avdl_parai-20111027|1459
CHN1
chimerin 1
EDL27145
3.55E-42
1.603
0.624
0.011
avdl_parai-20111027|15333
GPSN2
similar to human glycoprotein, synaptic 2
AB173082.1
0
1.601
0.625
0.013
avdl_parai-20111027|21133
PTPRR
receptor-type tyrosine-protein phosphatase r
XP_002189910
0
1.592
0.628
0.043
avdl_parai-20111027|9405
THNSL2
threonine synthase-like 2
XP_420866
1.65E-101
1.592
0.628
0.044
avdl_parai-20111027|20903
WBSCR16
williams-beuren syndrome chromosome region 16
XP_002191844
0
1.566
0.638
0.004
avdl_parai-20111027|16850
MST4
serine threonine protein kinase mst4
XP_002190721
0
1.551
0.645
0.004
avdl_parai-20111027|21871
RGS7
regulator of G-protein signaling 7
XP_003364604
0
1.547
0.647
0.004
avdl_parai-20111027|19594
WDR190
wd repeat-containing protein 90
XP_002192036
0
1.534
0.652
0.015
avdl_parai-20111027|8057
MAPK12
mitogen-activated protein kinase 12
XP_002189751
2.28E-59
1.525
0.656
0.016
avdl_parai-20111027|18339
NPM3
nucleophosmin 3
XP_002192777
7.06E-83
1.467
0.682
0.050
avdl_parai-20111027|21085
ATN1
atrophin-1
XP_002192886
1.48E-130
1.453
0.688
0.034
avdl_parai-20111027|22047
PHF11
phd finger protein 11
XP_417062
1.71E-157
1.421
0.704
0.014
avdl_parai-20111027|8523
VRK1
serine threonine-protein kinase vrk1
NP_001006485
8.74E-113
1.418
0.705
0.008
avdl_parai-20111027|1077
SLC25A47
solute carrier family 25 member 47-like
XP_002200286
0
1.416
0.706
0.048
n-(beta-n-acetylglucosaminyl)-l-asparaginase-like
XP_002188371
4.30E-152
1.414
0.707
0.041
programmed cell death 4
XP_002194886
1.89E-67
1.408
0.710
0.031
XP_417826
0
1.400
0.714
0.036
zinc finger protein
XP_002199152
2.75E-44
1.395
0.717
0.042
NP_001012622
0
1.394
0.718
0.018
ACH45461
1.10E-179
1.385
0.722
0.048
XP_002200015
0
1.379
0.725
0.020
XP_419583
0
1.367
0.731
0.005
avdl_parai-20111027|43
AGA
avdl_parai-20111027|12974
PDCD4
avdl_parai-20111027|3208
MFSD2A
avdl_parai-20111027|6862
major facilitator superfamily domain containing 2
avdl_parai-20111027|22298
MAEA
macrophage erythroblast attacher
avdl_parai-20111027|21161
TPI1
putative triosephosphate isomerase
avdl_parai-20111027|21656
MADD
map kinase-activating death domain protein isoform 2
avdl_parai-20111027|3793
COG2
component of oligomeric golgi complex 2
avdl_parai-20111027|15969
RHOT1
ras homolog gene member t1 isoform 1
XP_002198622
0
1.354
0.738
0.008
avdl_parai-20111027|20893
ACAP2
arf-gap coiled-ank repeat ph domain-containing protein 2
XP_002189166
1.29E-117
1.341
0.746
0.043
avdl_parai-20111027|15362
PEMT
phosphatidylethanolamine n-methyltransferase
XP_002188568
1.06E-133
1.336
0.749
0.029
avdl_parai-20111027|4415
SLC25A26
s-adenosylmethionine mitochondrial carrier protein
XP_414419
3.02E-154
1.335
0.749
0.009
avdl_parai-20111027|6103
SEPSECS
o-phosphoseryl-trna selenium transferase
XP_002191243
0
1.324
0.755
0.029
avdl_parai-20111027|2787
RCN2
reticulocalbin 2
XP_002192096
7.27E-79
1.320
0.758
0.010
avdl_parai-20111027|21894
CIZ1
cip1-interacting zinc finger protein
XP_002194413
0
1.314
0.761
0.007
avdl_parai-20111027|19795
ANXA4
annexin a4
NP_001232235
0
1.301
0.769
0.030
avdl_parai-20111027|5558
ADRA1B
alpha-1b adrenergic receptor
XP_002192617
4.15E-151
1.297
0.771
0.036
avdl_parai-20111027|16435
DUS4L
trna-dihydrouridine synthase 4-like
XP_002192992
0
1.294
0.773
0.016
avdl_parai-20111027|22577
MPHOSPH10
u3 small nucleolar ribonucleoprotein protein mpp10
XP_002194722
2.66E-110
1.289
0.776
0.015
avdl_parai-20111027|2664
SGTB
small glutamine-rich tetratricopeptide repeat-beta
XP_002190540
1.33E-163
1.289
0.776
0.011
avdl_parai-20111027|4267
PLS1
plastin-1
XP_002198816
0
1.281
0.781
0.047
avdl_parai-20111027|16260
CBFB
core-binding factor subunit beta-like
XP_003209696
2.12E-70
1.275
0.784
0.018
avdl_parai-20111027|3383
ARHGAP10
rho gtpase-activating protein 10-like
XP_420436
0
1.273
0.786
0.021
avdl_parai-20111027|19729
GRM3
metabotropic glutamate receptor 3
XP_002193821
0
1.271
0.787
0.020
avdl_parai-20111027|18117
BDNF
brain-derived neurotrophic partial
ADG64741
1.03E-151
1.271
0.787
0.046
avdl_parai-20111027|3260
FAM134B
protein fam134b-like
XP_002187270
0
1.262
0.792
0.040
avdl_parai-20111027|879
POC1A
poc1 centriolar protein homolog a
XP_003210009
0
1.255
0.797
0.028
isopentenyl-diphosphate delta-isomerase 1-like
XP_002193240
1.45E-157
1.254
0.797
0.021
avdl_parai-20111027|9477
c1orf37
XP_002195831
0
1.248
0.801
0.028
avdl_parai-20111027|2149
riken cdna isoform cra_b
XP_418261
3.79E-128
1.245
0.804
0.012
XP_002189743
0
1.244
0.804
0.019
avdl_parai-20111027|15971
IDI1
avdl_parai-20111027|22060
AGPAT3
1-acylglycerol-3-phosphate o-acyltransferase 3
avdl_parai-20111027|21670
GUCY1B3
guanylate cyclase soluble subunit beta-1
XP_420376
0
1.244
0.804
0.036
avdl_parai-20111027|16486
FADS6
fatty acid desaturase domain member 6
XP_002190875
0
1.240
0.807
0.018
d-beta-hydroxybutyrate mitochondrial-like
XP_003453238
2.52E-29
1.240
0.807
0.024
avdl_parai-20111027|16798
avdl_parai-20111027|17727
protein njmu-r1-like
XP_003211591
0
1.240
0.807
0.036
avdl_parai-20111027|14264
NBR1
next to brca1 gene 1 protein
XP_002195327
0
1.229
0.813
0.032
avdl_parai-20111027|17213
PECI
peroxisomal-enoyl-isomerase
XP_003204816
0
1.229
0.814
0.027
avdl_parai-20111027|22677
CNKSR2
connector enhancer of kinase suppressor of ras 2
XP_002196504
0
1.228
0.815
0.050
avdl_parai-20111027|3299
NELL1
protein kinase c-binding protein nell1 isoform 1
XP_002189677
0
1.225
0.816
0.010
avdl_parai-20111027|18813
TWISTNB
twist neighbor
XP_002190396
4.36E-113
1.225
0.817
0.037
avdl_parai-20111027|14536
JAKMIP1
janus kinase and microtubule-interacting protein 1
XP_003205986
0
1.220
0.820
0.015
avdl_parai-20111027|18268
CHID1
chitinase domain-containing protein 1 precursor
XP_002199280
0
1.220
0.820
0.010
avdl_parai-20111027|17012
MTX3
metaxin-3
XP_002188439
4.85E-174
1.212
0.825
0.035
avdl_parai-20111027|3936
CTPS2
ctp synthase 2
XP_002197319
0
1.191
0.839
0.042
avdl_parai-20111027|6285
GABPA
ga-binding protein alpha chain
XP_002186933
0
1.189
0.841
0.045
avdl_parai-20111027|452
PCGF3
polycomb group ring finger protein 3-like
XP_424870
5.78E-177
1.189
0.841
0.048
avdl_parai-20111027|6946
RCBTB1
rcc1 and btb domain-containing protein 1
XP_002198142
0
1.186
0.843
0.043
avdl_parai-20111027|16607
CHST8
carbohydrate sulfotransferase 8
XP_003209863
0
1.180
0.848
0.014
avdl_parai-20111027|19085
SGSM2
small G protein signaling modulator 2
XP_415919
0
1.179
0.848
0.013
rwd domain-containing protein 2b-like
XP_002188122
0
1.179
0.848
0.039
XP_419335
2.44E-133
1.159
0.863
0.011
avdl_parai-20111027|2135
avdl_parai-20111027|18398
APLF
aprataxin and pnk-like factor-like
avdl_parai-20111027|21484
PDK1
pyruvate dehydrogenase isozyme 1
XP_002198856
0
1.159
0.863
0.036
avdl_parai-20111027|17090
COQ3
hexaprenyldihydroxybenzoate mitochondrial
XP_002194375
0
1.130
0.885
0.005
avdl_parai-20111027|14770
OPTN
optineurin
XP_002192296
0
1.129
0.886
0.037
avdl_parai-20111027|14580
COMMD6
comm domain-containing protein 6
XP_002197283
1.65E-122
1.129
0.886
0.037
avdl_parai-20111027|15767
LZIC
protein lzic-like
XP_002187653
2.56E-115
1.099
0.910
0.040
avdl_parai-20111027|14924
ZNF313
zinc finger protein 313
XP_002187039
6.19E-94
0.936
1.069
0.047
avdl_parai-20111027|16376
ERRFI1
erbb receptor feedback inhibitor 1
XP_002195324
0
0.932
1.073
0.035
avdl_parai-20111027|18101
TTC15
tetratricopeptide repeat domain 15
XP_002195606
0
0.928
1.077
0.024
phosphate carrier mitochondrial-like
XP_002189725
0
0.923
1.083
0.036
golgi to er traffic protein 4 homolog
NP_001232308
0
0.910
1.099
0.044
protein phosphatase 1a magnesium-alpha isoform
XP_002200637
0
0.906
1.104
0.003
avdl_parai-20111027|6078
avdl_parai-20111027|18663
GET4
avdl_parai-20111027|1893
PPM1A
avdl_parai-20111027|17195
upf0472 protein c16orf72-like
AES11367
1.18E-33
0.901
1.110
0.038
avdl_parai-20111027|14625
uap56-interacting factor-like
XP_420211
7.35E-100
0.897
1.114
0.038
avdl_parai-20111027|7894
KHDRBS1
kh domain rna signal transduction associated 1
NP_989561
1.27E-120
0.890
1.124
0.032
avdl_parai-20111027|17431
GLT25D2
glycosyltransferase 25 domain containing 2
XP_422290
0
0.890
1.124
0.049
avdl_parai-20111027|16136
ELMO1
engulfment and cell motility protein 1 isoform 1
XP_003207345
0
0.888
1.126
0.029
avdl_parai-20111027|15986
MED17
mediator of rna polymerase ii transcription subunit 17
XP_002200147
0
0.884
1.131
0.019
avdl_parai-20111027|13898
SPECC1
cytospin-b isoform 3
XP_002198463
0
0.883
1.133
0.045
avdl_parai-20111027|1566
BMI1
polycomb complex protein bmi-1
XP_001511592
0
0.874
1.144
0.035
avdl_parai-20111027|14208
UNC119B
XP_415263
2.19E-124
0.873
1.146
0.047
avdl_parai-20111027|2793
MTRR
methionine synthase reductase
XP_002189944
0
0.872
1.147
0.033
avdl_parai-20111027|15051
ACP2
acid phosphatase lysosomal
NP_001026719
0
0.871
1.149
0.032
avdl_parai-20111027|3683
EGF
epidermal growth factor (beta-urogastrone)
XP_002195264
0
0.865
1.157
0.028
protein unc-119 homolog b
avdl_parai-20111027|2417
GABBR1
gamma-aminobutyric acid b 1
XP_003217948
0
0.864
1.157
0.035
avdl_parai-20111027|427
MBTPS1
membrane-bound transcription factor site-1 protease
XP_003209684
0
0.861
1.161
0.044
avdl_parai-20111027|9421
ACADVL
acyl-coenzyme a very long chain
NP_997776
0
0.860
1.162
0.015
avdl_parai-20111027|21489
CELF4
elav-like family member 4
XP_425051
0
0.857
1.167
0.030
avdl_parai-20111027|14571
CDKL2
cyclin-dependent kinase-like 2
XP_426294
0
0.857
1.167
0.015
avdl_parai-20111027|13842
NFE2L1
nuclear factor erythroid 2-related factor 1
XP_003214166
0
0.855
1.170
0.050
avdl_parai-20111027|6815
NEDD9
enhancer of filamentation 1
XP_002187410
0
0.854
1.170
0.016
avdl_parai-20111027|15463
NAT10
n-acetyltransferase 10
XP_002188947
0
0.851
1.175
0.005
avdl_parai-20111027|14793
ACOT9
acyl-thioesterase 9
XP_002196072
0
0.850
1.177
0.046
avdl_parai-20111027|5232
PPP1R2
protein phosphatase inhibitor 2-like
XP_002188376
5.08E-77
0.850
1.177
0.004
avdl_parai-20111027|15241
EXT2
exostoses 2
XP_002199808
0
0.849
1.177
0.040
avdl_parai-20111027|5670
SETDB1
XP_423391
0
0.848
1.179
0.022
avdl_parai-20111027|15338
USE1
vesicle transport protein use1-like
XP_003213353
1.56E-126
0.846
1.181
0.047
avdl_parai-20111027|17434
ZNF362
zinc finger protein 362
XP_001381697
0
0.843
1.186
0.050
avdl_parai-20111027|4056
PTCD3
pentatricopeptide repeat protein mitochondrial precursor
XP_002186844
0
0.842
1.187
0.007
avdl_parai-20111027|367
D2HGDH
d-2-hydroxyglutarate dehydrogenase
XP_002191768
0
0.840
1.191
0.018
avdl_parai-20111027|4740
TMEM209
transmembrane protein 209
XP_002187497
0
0.839
1.191
0.028
avdl_parai-20111027|15467
PDXDC1
pyridoxal decarboxylase domain-containing protein 1
XP_002197812
0
0.839
1.192
0.032
avdl_parai-20111027|189
DHTKD1
2-oxoglutarate dehydrogenase e1 component mitochondrial
XP_002189880
0
0.838
1.193
0.013
avdl_parai-20111027|3996
BBS4
bardet-biedl syndrome 4 protein
XP_002193061
0
0.837
1.195
0.029
histone-lysine n-methyltransferase setdb1
avdl_parai-20111027|16242
NENF
neuron derived neurotrophic factor
XP_002193322
1.19E-86
0.834
1.198
0.048
avdl_parai-20111027|13915
FMOD
fibromodulin
XP_002187769
0
0.833
1.201
0.016
C-terminal rna polymerase ii polypept a small phosphatase 1
XP_003641697
7.93E-143
0.830
1.205
0.047
zinc finger partial
XP_002200246
1.17E-78
0.829
1.206
0.007
avdl_parai-20111027|151
CTDSP1
avdl_parai-20111027|4903
avdl_parai-20111027|3507
DARS2
aspartyl-trna mitochondrial-like
XP_002190760
0
0.829
1.207
0.045
avdl_parai-20111027|4152
SIDT2
sid1 transmembrane family member 2
XP_001233566
0
0.827
1.208
0.026
avdl_parai-20111027|15152
LARP6
la ribonucleoprotein domain member 6
XP_002195080
0
0.827
1.210
0.011
peptidyl-prolyl cis-trans isomerase fkbp4
XP_003202649
0
0.826
1.210
0.014
NP_001025872
0
0.823
1.214
0.042
avdl_parai-20111027|14104
avdl_parai-20111027|14425
SEPT9
septin 9
avdl_parai-20111027|11151
SGSM2
small G protein signaling modulator 2
XP_415919
0
0.823
1.214
0.026
avdl_parai-20111027|3391
CAMK2N1A
calcium calmodulin-dependent protein kinase ii variant 6
ACH45569
2.67E-16
0.823
1.215
0.049
avdl_parai-20111027|17648
POLR2B
dna-directed rna polymerase ii subunit rpb2
XP_002192218
0
0.822
1.216
0.013
avdl_parai-20111027|16371
TSNAX
translin-associated factor x
XP_002193002
0
0.821
1.218
0.012
avdl_parai-20111027|18853
TUBGCP4
gamma-tubulin complex component 4
XP_002190120
0
0.821
1.219
0.001
avdl_parai-20111027|9777
SEMA4C
sema IG domain transmembrane and short cytoplasmic 4c
XP_003230710
2.30E-27
0.819
1.221
0.043
upf0712 protein c7orf64-like
NP_001026145
3.04E-171
0.817
1.224
0.031
rab6-interacting golgin-like
XP_003208630
6.14E-107
0.817
1.224
0.034
solute carrier family 25 member 34-like
XP_002189378
1.54E-48
0.815
1.228
0.047
avdl_parai-20111027|1092
avdl_parai-20111027|15989
GORAB
avdl_parai-20111027|8525
SLC25A35
avdl_parai-20111027|14545
PEX26
peroxisome assembly protein 26-like
XP_002192357
2.23E-56
0.807
1.239
0.025
avdl_parai-20111027|22957
UBE2M
nedd8-conjugating enzyme ubc12
XP_003224543
5.24E-111
0.806
1.241
0.014
avdl_parai-20111027|21537
PYGL
glycogen liver form isoform 1
avdl_parai-20111027|18010
ORC3
origin recognition subunit 3-like
avdl_parai-20111027|14118
TKT
transketolase
avdl_parai-20111027|4258
avdl_parai-20111027|17994
0
0.804
1.244
0.031
XP_002198214
0
0.804
1.244
0.016
XP_414333
0
0.803
1.245
0.036
XP_002192276
0
0.803
1.246
0.025
ras gtpase-activating protein
CAD28452
1.33E-91
0.803
1.246
0.043
plasmodium exported protein
XP_001629598
7.54E-12
0.800
1.249
0.043
pre-b-cell leukemia homeobox 3
NP_001025849
0
0.800
1.250
0.031
uncharacterized protein C17orf97-like
XP_002939006
9.57E-04
0.800
1.250
0.018
upf0624 protein c6orf186-like
SYNGAP1
avdl_parai-20111027|21948
avdl_parai-20111027|16892
NP_989723
PBX3
avdl_parai-20111027|22672
avdl_parai-20111027|14113
CCPG1
cell cycle progression protein 1-like
XP_002197732
0
0.799
1.251
0.042
avdl_parai-20111027|4625
TTC3
e3 ubiquitin-protein ligase ttc3
XP_002189310
0
0.798
1.253
0.001
avdl_parai-20111027|1896
AADAT
kynurenine alpha-aminoadipate mitochondrial
XP_002187451
0
0.796
1.256
0.027
avdl_parai-20111027|18271
GLIS2
zinc finger protein glis2
AAK28409
1.01E-120
0.795
1.258
0.020
avdl_parai-20111027|21076
PCYT1A
choline-phosphate cytidylyltransferase a
XP_422725
0
0.789
1.267
0.006
avdl_parai-20111027|4619
FBXO42
f-box only protein 42
EDL80970
3.58E-37
0.789
1.268
0.036
avdl_parai-20111027|22134
TSC2
tuberin-like isoform 2
XP_002187082
0
0.789
1.268
0.009
avdl_parai-20111027|3855
CDH20
cadherin type 2
XP_002199261
0
0.788
1.268
0.018
avdl_parai-20111027|1877
HDAC1
histone deacetylase 1
XP_002194370
0
0.787
1.271
0.006
avdl_parai-20111027|3693
SLC44A2
choline transporter-like protein 2-like
XP_002199756
1.53E-117
0.785
1.275
0.008
avdl_parai-20111027|15898
CYP46A1
cholesterol 24-hydroxylase-like
XP_002200603
0
0.784
1.276
0.001
avdl_parai-20111027|13853
DHX16
deah (asp-glu-ala-his) box polypeptide 16
XP_003451258
0
0.782
1.279
0.034
avdl_parai-20111027|68
CYP4V2
cytochrome family subfamily polypeptide 2
NP_001001879
0
0.779
1.283
0.026
avdl_parai-20111027|17445
CRYL1
lambda-crystallin homolog
XP_003203496
0
0.779
1.283
0.002
avdl_parai-20111027|863
SLITRK5
slit and ntrk-like member 5
XP_003640596
1.89E-43
0.778
1.286
0.027
avdl_parai-20111027|121
GRTP1
growth hormone-regulated tbc protein 1-like
XP_003203254
0
0.777
1.287
0.042
avdl_parai-20111027|13924
BRPF1
peregrin isoform 2
XP_002186959
0
0.777
1.287
0.023
avdl_parai-20111027|7441
PTPN1
tyrosine-protein phosphatase non-receptor type 1
XP_002186948
0
0.777
1.287
0.008
avdl_parai-20111027|4702
ELAVL3
elav (embryonic abnormal drosophila)-like 2 (hu antigen b)
NP_990163
0
0.775
1.291
0.006
avdl_parai-20111027|20970
DNER
delta notch-like egf repeat containing
XP_002195053
0
0.774
1.293
0.021
avdl_parai-20111027|15834
PARVB
beta-parvin
XP_002191030
0
0.772
1.295
0.016
avdl_parai-20111027|21808
DDX3X
atp-dependent rna helicase ddx3x
XP_002190578
0
0.770
1.298
0.035
avdl_parai-20111027|2681
PKM2
pyruvate muscle
XP_002192134
0
0.770
1.298
0.021
avdl_parai-20111027|14210
COPE
coatomer protein subunit epsilon
XP_003213335
2.90E-172
0.770
1.298
0.018
avdl_parai-20111027|12777
PIK3CG
phosphoinositide 3-kinase
XP_002192548
0
0.769
1.301
0.007
avdl_parai-20111027|8102
WIZ
wiz protein
XP_003643317
1.61E-44
0.768
1.302
0.024
avdl_parai-20111027|3068
KCNAB2
voltage-gated potassium channel subunit beta-2 isoform 1
XP_002196284
3.81E-46
0.766
1.305
0.043
avdl_parai-20111027|4005
SYMPK
symplekin
XP_002762296
0
0.764
1.308
0.038
avdl_parai-20111027|18973
PPP3CB
ser/threonine-protein phosphatase 2b catalytic beta isoform
NP_001025511
0
0.763
1.310
0.041
avdl_parai-20111027|3833
GDPD2
glycerophosphoinositol inositolphosphodiesterase gdpd2
XP_002188261
0
0.761
1.313
0.041
avdl_parai-20111027|2552
PRMT7
protein arginine n-methyltransferase 7-like
XP_003209740
0
0.761
1.313
0.050
avdl_parai-20111027|22795
KLHDC2
kelch domain-containing protein 2
XP_002200662
0
0.760
1.316
0.032
avdl_parai-20111027|21299
SLC25A28
avdl_parai-20111027|16947
TTC27
avdl_parai-20111027|14245
XP_421702
1.01E-178
0.759
1.317
0.033
tetratricopeptide repeat protein 27
XP_003204003
0
0.757
1.321
0.021
TCERG1
transcription elongation regulator 1
XP_002189877
0
0.757
1.322
0.012
avdl_parai-20111027|15803
UBE4A
ubiquitin conjugation factor e4 a
XP_002189187
0
0.756
1.323
0.032
avdl_parai-20111027|22318
TAF6
transcription initiation factor tfiid subunit 6
EDL19209
0
0.754
1.326
0.023
avdl_parai-20111027|16700
CYFIP
cytoplasmic fmr1 interacting protein 1
XP_003203168
0
0.753
1.328
0.022
avdl_parai-20111027|14062
CORO1B
NP_035908
0
0.752
1.330
0.044
avdl_parai-20111027|19249
ADD3
XP_002197630
0
0.751
1.331
0.019
avdl_parai-20111027|16106
ALDH9A1
4-trimethylaminobutyraldehyde dehydrogenase
XP_422248
0
0.749
1.335
0.027
avdl_parai-20111027|3572
SFXN5
sideroflexin 5
XP_420891
0
0.748
1.337
0.047
riken cdna 4732471d19
XP_002194388
0
0.747
1.339
0.044
early b-cell factor 3
XP_003341511
0
0.747
1.339
0.021
neurogenic differentiation factor 2-like
XP_003643468
1.41E-174
0.746
1.341
0.044
EDL12515
3.35E-15
0.744
1.345
0.045
avdl_parai-20111027|17626
mitoferrin-2
coronin-1b
gamma-adducin-like isoform 2
avdl_parai-20111027|16960
EBF3
avdl_parai-20111027|9752
NEUROD2
avdl_parai-20111027|1014
PHF23
phd finger protein 23
avdl_parai-20111027|13680
CCDC6
coiled-coil domain-containing protein 6
NP_001026392
0
0.743
1.345
0.036
avdl_parai-20111027|20668
ASPA
aspartoacylase
XP_002195976
1.06E-118
0.743
1.345
0.048
avdl_parai-20111027|15279
MLF1
myeloid leukemia factor 1
XP_002186757
4.73E-143
0.742
1.347
0.016
avdl_parai-20111027|15253
PELP1
proline- glutamic acid- and leucine-rich protein 1
XP_001370703
1.54E-176
0.739
1.353
0.031
avdl_parai-20111027|20234
TMEM50A
transmembrane protein 50a
NP_001232355
2.17E-99
0.738
1.354
0.036
avdl_parai-20111027|7204
SCAF1
splicing arginine serine-rich 19
XP_003222776
1.24E-22
0.738
1.355
0.008
avdl_parai-20111027|8069
NINL
avdl_parai-20111027|16143
TRDMT1
avdl_parai-20111027|4506
ninein-like protein
XP_003640976
1.81E-68
0.736
1.359
0.049
trna (cytosine-5-)-methyltransferase
XP_002192893
0
0.735
1.361
0.011
wd repeat-containing protein c2orf44 homolog
XP_002188705
0
0.734
1.362
0.046
avdl_parai-20111027|7019
PGM3
phosphoacetylglucosamine mutase isoform 1
XP_002189068
0
0.734
1.363
0.048
avdl_parai-20111027|7066
TFB1M
mitochondrial dimethyladenosine transferase 1
XP_002196390
0
0.729
1.372
0.003
avdl_parai-20111027|21611
RBM5
rna-binding protein 5
XP_003210072
1.93E-178
0.726
1.377
0.041
avdl_parai-20111027|14117
DRP2
dystrophin-related protein 2
XP_002187357
0
0.724
1.381
0.020
nucleoside diphosphate kinase homolog 5-like
XP_002196119
7.84E-96
0.724
1.381
0.030
avdl_parai-20111027|523
avdl_parai-20111027|2358
ZNF668
zinc finger protein 668
XP_003213927
1.79E-137
0.720
1.390
0.013
avdl_parai-20111027|6337
CALCR
calcitonin receptor-like
XP_003212187
2.87E-64
0.719
1.391
0.001
avdl_parai-20111027|22162
FAM82A2
regulator of microtubule dynamics protein 3-like
XP_002196032
0
0.719
1.392
0.025
avdl_parai-20111027|2244
RMI2
recq-mediated genome instability protein 2-like
XP_002197326
1.75E-40
0.718
1.392
0.032
avdl_parai-20111027|4120
SEMA7A
semaphorin 7a
NP_001186678
0
0.718
1.393
0.034
avdl_parai-20111027|2569
AGAP3
arf-gap with ank repeat and ph domain-containing protein 3
XP_003640679
0
0.717
1.394
0.005
avdl_parai-20111027|20262
KCNC4
potassium voltage-gated channel subfamily c member 4
XP_003642768
0
0.716
1.397
0.026
avdl_parai-20111027|3046
STIM1
stromal interaction molecule 1
NP_001026009
0
0.716
1.397
0.049
avdl_parai-20111027|4273
GTF2F1
general transcription factor iif subunit 1
NP_001015527
1.61E-149
0.714
1.401
0.040
avdl_parai-20111027|21706
PFKFB2
6-phosphofructo-2-kinase fructose-biphosphatase 2
XP_417979
0
0.713
1.403
0.003
avdl_parai-20111027|3918
PLXDC1
plexin domain-containing protein 1
XP_001235084
0
0.711
1.407
0.030
avdl_parai-20111027|16312
PGM1
phosphoglucomutase 1
XP_002198857
0
0.709
1.410
0.021
avdl_parai-20111027|17393
B4GALT3
beta-galactosyltransferase 3
XP_003229084
0
0.708
1.413
0.044
avdl_parai-20111027|15546
SHANK3
sh3 and multiple ankyrin repeat domains protein 3
XP_003229254
0
0.707
1.414
0.018
avdl_parai-20111027|5209
MANBA
mannosidase, beta A, lysosomal
XP_002193416
0
0.707
1.415
0.037
avdl_parai-20111027|8667
FGFR2
fibroblast growth factor receptor 2 isoform cra_e
NP_990650
9.30E-126
0.701
1.426
0.030
avdl_parai-20111027|14068
DCAF8
ddb1- and cul4-associated factor 8
NP_705783
0
0.697
1.435
0.035
avdl_parai-20111027|10108
SPATA20
spermatogenesis-associated protein 20
XP_002191427
0
0.694
1.441
0.041
upf0369 protein c6orf57-like
XP_002192669
1.06E-24
0.692
1.445
0.016
selenophosphate synthetase 1
XP_002717658
0
0.689
1.452
0.030
novel protein
XP_002192104
8.18E-59
0.688
1.453
0.018
u5 small nuclear ribonucleoprotein 200 kda helicase
XP_003208576
0
0.684
1.462
0.039
avdl_parai-20111027|14828
avdl_parai-20111027|17681
SEPHS1
avdl_parai-20111027|7172
avdl_parai-20111027|21772
SNRNP200
avdl_parai-20111027|14196
PYGB
glycogen brain form
NP_001026205
0
0.683
1.464
0.031
avdl_parai-20111027|2163
KRT10
keratin 17
XP_001235182
0
0.681
1.468
0.040
avdl_parai-20111027|21915
L1CAM
neural cell adhesion molecule 1 precursor
CAA99303
1.59E-136
0.678
1.474
0.012
avdl_parai-20111027|15069
MARK3
map microtubule affinity-regulating kinase 3-like
XP_002200615
0
0.678
1.476
0.003
avdl_parai-20111027|20359
EPB41
erythrocyte protein band
XP_002192849
3.57E-60
0.674
1.483
0.006
avdl_parai-20111027|22194
MARCH7
e3 ubiquitin-protein ligase march7 isoform 1
XP_002188072
0
0.674
1.485
0.016
avdl_parai-20111027|7697
VAV2
vav2 guanine nucleotide exchange factor
AAH33187
5.58E-63
0.673
1.486
0.032
avdl_parai-20111027|3832
ARSA
arylsulfatase a
XP_424471
0
0.671
1.490
0.050
avdl_parai-20111027|19572
MDC1
mediator of dna damage checkpoint 1
2ETX_A
1.13E-36
0.671
1.490
0.011
avdl_parai-20111027|14032
KAZALD1
XP_002188693
0
0.669
1.495
0.015
kazal-type serine protease inhibitor domain protein 1-like
avdl_parai-20111027|15006
TTC21B
tetratricopeptide repeat protein 21b
XP_002194559
0
0.668
1.496
0.006
avdl_parai-20111027|20377
BZRAP1
benzodiazapine receptor associated protein 1
XP_002188274
0
0.666
1.501
0.033
avdl_parai-20111027|16844
TSC2
tuberin-like isoform 2
XP_002187082
0
0.665
1.504
0.000
avdl_parai-20111027|21684
GRIN1
glutamate n-methyl d-aspartate 1
NP_996862
0
0.664
1.506
0.009
avdl_parai-20111027|23115
MPDU1B
Q9R0Q9
1.21E-44
0.663
1.508
0.020
avdl_parai-20111027|4793
ITFG3
protein itfg3
XP_002194023
0
0.663
1.508
0.027
avdl_parai-20111027|22204
TPST1
tyrosylprotein sulfotransferase 1
XP_003211762
0
0.660
1.516
0.006
avdl_parai-20111027|3080
MAP4
microtubule-associated protein 4 isoform 4
XP_002191430
0
0.659
1.519
0.043
avdl_parai-20111027|10446
GAA
lysosomal alpha-glucosidase-like
XP_420085
7.90E-95
0.656
1.525
0.017
avdl_parai-20111027|14643
EXD2
exonuclease 3-5 domain-containing protein 2 isoform 1
XP_002200511
0
0.654
1.530
0.017
avdl_parai-20111027|11011
PDE11A
dual 3-cyclic-amp and -gmp phosphodiesterase 11a
XP_002197020
0
0.651
1.536
0.049
avdl_parai-20111027|19971
PCDHA6
protocadherin alpha 9
NP_001104609
9.69E-58
0.650
1.538
0.004
avdl_parai-20111027|15807
ZNF420
zinc finger protein 420-like
XP_425495
0
0.650
1.538
0.026
avdl_parai-20111027|23147
CYTH2
cytohesin 2
XP_003225911
0
0.645
1.551
0.043
avdl_parai-20111027|21838
ZNF180
zinc finger protein 180-like
XP_003217945
1.56E-79
0.643
1.555
0.049
avdl_parai-20111027|3584
NUP98
nuclear pore complex protein nup98-nup96
XP_428171
0
0.643
1.556
0.019
avdl_parai-20111027|11167
AGPAT2
1-acylglycerol-3-phosphate o-acyltransferase 2
ADH10534
6.69E-55
0.642
1.557
0.020
avdl_parai-20111027|18685
NELL1
protein kinase c-binding protein nell1 isoform 2
XP_002189677
0
0.641
1.560
0.017
avdl_parai-20111027|22509
PLEC
plectin isoform 1hij
XP_003229590
0
0.636
1.572
0.015
avdl_parai-20111027|21952
BPGM
bisphosphoglycerate mutase-like
XP_002192210
6.55E-92
0.635
1.575
0.022
mannose-p-dolichol utilization defect 1
avdl_parai-20111027|14131
CRBN
protein cereblon-like
XP_002186999
0
0.635
1.576
0.011
avdl_parai-20111027|20759
SLC6A2
arylamine n-acetyltransferase 2
XP_002196802
1.04E-82
0.635
1.576
0.022
avdl_parai-20111027|17552
PTPRR
receptor-type tyrosine-protein phosphatase r
XP_002189910
0
0.634
1.577
0.036
avdl_parai-20111027|16221
FAM48A
family with sequence similarity member a
XP_002196662
0
0.626
1.598
0.011
avdl_parai-20111027|13349
TOX4
tox high mobility group box family member 4
AES08630
6.84E-26
0.626
1.598
0.014
avdl_parai-20111027|22983
NAPA
n-ethylmaleimide-sensitive factor attachment alpha
NP_001011280
2.28E-147
0.622
1.609
0.011
avdl_parai-20111027|22268
LRP11
low-density lipoprotein receptor-related protein 11-like
XP_002188612
1.87E-177
0.620
1.612
0.008
avdl_parai-20111027|21769
GPSN2
similar to human glycoprotein, synaptic 2
AB173082.1
0
0.620
1.612
0.036
avdl_parai-20111027|21958
SON
protein son-like
XP_003640567
0
0.618
1.617
0.043
avdl_parai-20111027|22196
PPP2R5A
protein phosphatase regulatory subunit b alpha isoform
XP_002193574
0
0.617
1.619
0.010
avdl_parai-20111027|1742
RUFY2
run and fyve domain-containing protein 2
EAW54293
0
0.614
1.627
0.025
avdl_parai-20111027|20197
ZFP207
zinc finger protein 207
EDL15637
3.72E-63
0.610
1.638
0.045
avdl_parai-20111027|21147
WDR73
wd repeat-containing protein 73
XP_002187555
1.08E-85
0.610
1.641
0.042
avdl_parai-20111027|1872
TMEM220
transmembrane protein 220-like
XP_415582
1.62E-58
0.606
1.651
0.047
XP_003225258
1.01E-37
0.605
1.653
0.003
ACH44033
6.16E-122
0.602
1.660
0.037
XP_002187991
0
0.600
1.666
0.016
NP_989905
0
0.600
1.667
0.049
avdl_parai-20111027|4044
chromosome 19 open reading frame 43
avdl_parai-20111027|15054
SAT1
spermidine spermine n1-acetyltransferase
avdl_parai-20111027|22474
VPS11
vacuolar protein sorting-associated protein 11 homolog
avdl_parai-20111027|615
FLNA
filamin alpha (actin binding protein 280)
avdl_parai-20111027|2498
AIMP2
aminoacyl trna synthase complex-interacting protein 2
XP_002192101
1.81E-94
0.597
1.674
0.011
avdl_parai-20111027|21676
MFHAS1
malignant fibrous histiocytoma-amplified sequence 1
XP_003205667
0
0.596
1.678
0.009
avdl_parai-20111027|4526
NACC1
nucleus accumbens-associated protein 1
XP_001366862
6.50E-144
0.594
1.683
0.034
avdl_parai-20111027|672
FBXO16
f-box only protein 16
XP_003412401
6.44E-110
0.594
1.684
0.020
BAE89008
4.00E-100
0.590
1.695
0.025
avdl_parai-20111027|22843
PI4KB
avdl_parai-20111027|13735
ZBTB8A
zinc finger and btb domain-containing protein 8a
XP_002197498
1.15E-99
0.587
1.704
0.006
avdl_parai-20111027|22445
RAD21
double-strand-break repair protein rad21 homolog
XP_002200442
0
0.584
1.713
0.010
avdl_parai-20111027|3605
DCN
decorin
XP_002186636
2.68E-144
0.583
1.714
0.025
pol partial
XP_002193721
3.46E-27
0.575
1.739
0.023
ubiquitin-conjugating enzyme e2 l3
XP_509962
7.74E-94
0.573
1.745
0.021
unnamed protein product
BAC25302
2.24E-06
0.571
1.752
0.032
avdl_parai-20111027|4956
avdl_parai-20111027|21135
UBE2L3
avdl_parai-20111027|22045
phosphatidylinositol 4-beta
avdl_parai-20111027|5015
SETD1A
histone-lysine n-methyltransferase setd1a
AAH98812
9.53E-86
0.571
1.752
0.041
avdl_parai-20111027|4945
CUTC
copper homeostasis protein cutc homolog
XP_002193150
7.82E-42
0.568
1.761
0.030
avdl_parai-20111027|22834
SLC27A1
long-chain fatty acid transport protein 1
XP_001363955
0
0.566
1.766
0.006
avdl_parai-20111027|4586
COCH
NP_990268
0
0.564
1.773
0.016
avdl_parai-20111027|4097
HNRNPL
3TO8_A
4.35E-148
0.563
1.777
0.012
avdl_parai-20111027|1503
CDKL1
cyclin-dependent kinase-like 1
XP_421464
0
0.562
1.780
0.028
avdl_parai-20111027|19299
LRRC14
leucine-rich repeat-containing protein 14
XP_003228428
7.90E-71
0.551
1.816
0.021
avdl_parai-20111027|3859
CUTA
protein isoform 2 precursor
DAA16679
3.96E-47
0.541
1.848
0.014
avdl_parai-20111027|20101
NQO2
ribosyldihydronicotinamide dehydrogenase
NP_001232463
7.07E-147
0.536
1.865
0.026
avdl_parai-20111027|3815
TMEM30A
transmembrane protein 30a
XP_002190339
0
0.527
1.897
0.000
avdl_parai-20111027|15294
USP54
inactive ubiquitin carboxyl-terminal hydrolase 54
XP_002193547
0
0.523
1.910
0.038
cochlin precursor
heterogeneous nuclear ribonucleoprotein l
avdl_parai-20111027|1262
NAT8B
XP_001236424
1.12E-47
0.518
1.932
0.029
avdl_parai-20111027|21679
PDE4DIP
phosphodiesterase 4d interacting protein
XP_423459
0
0.516
1.939
0.001
avdl_parai-20111027|20942
NDUFB2
nadh dehydrogenase
NP_001232694
8.12E-42
0.515
1.942
0.014
avdl_parai-20111027|21738
RNF139
e3 ubiquitin-protein ligase rnf139
XP_002186551
0
0.508
1.970
0.007
avdl_parai-20111027|2856
RNF208
ring finger protein 208-like
XP_415552
2.49E-159
0.508
1.970
0.017
avdl_parai-20111027|7971
ANKRD5
ankyrin repeat domain-containing protein 5
XP_002196510
3.77E-94
0.507
1.971
0.049
avdl_parai-20111027|22117
ZDHHC17
palmitoyltransferase zdhhc17
XP_003202148
0
0.506
1.977
0.046
avdl_parai-20111027|22943
DGAT1
diacylglycerol acyltransferase
ABY25853
0
0.504
1.985
0.016
avdl_parai-20111027|22720
LKB1
serine threonine kinase 11
XP_003213292
0
0.498
2.007
0.004
avdl_parai-20111027|22278
SLMO2
protein slowmo homolog 2-like
XP_003212176
1.09E-115
0.495
2.021
0.023
avdl_parai-20111027|14030
ARHGAP32
rho gtpase-activating protein 32-like
XP_003223220
0
0.478
2.091
0.021
avdl_parai-20111027|3788
DBP
AAH84676
1.32E-20
0.478
2.092
0.027
avdl_parai-20111027|22919
PTPN1
tryosine-protein phosphatase non-receptor type 1
XP_002186948
5.96E-160
0.476
2.099
0.044
avdl_parai-20111027|21182
POU6F1
pou class 6 homeobox 1
AAI07091
7.86E-19
0.475
2.106
0.000
avdl_parai-20111027|17025
RGS7
regulator of g-protein signaling 7
XP_002196203
0
0.475
2.107
0.001
hypothetical protein
XP_002587892
9.47E-04
0.470
2.129
0.040
2-cyclic-nucleotide 3-phosphodiesterase
XP_002194487
0
0.469
2.132
0.001
cdgsh iron-sulfur domain protein mitochondrial-like
NP_001106562
4.08E-15
0.464
2.157
0.007
DAA06337
0
0.462
2.165
0.031
Q92154
1.52E-93
0.459
2.177
0.021
avdl_parai-20111027|19762
avdl_parai-20111027|21298
CNP
avdl_parai-20111027|9712
CISD3
avdl_parai-20111027|22644
CACNB4
avdl_parai-20111027|3884
MAG
probable n-acetyltransferase 8b-like
d site-binding protein
voltage-dependent l-type calcium channel subunit beta-4
myelin-associated glycoprotein
avdl_parai-20111027|22038
SLMO2
protein slowmo homolog 2-like
XP_003212176
1.73E-106
0.459
2.177
0.002
avdl_parai-20111027|7068
CLEC3B
tetranectin precursor
XP_002199169
1.56E-130
0.455
2.197
0.038
avdl_parai-20111027|23225
TBCB
tubulin-folding cofactor b
XP_001493874
8.15E-95
0.445
2.246
0.017
avdl_parai-20111027|22105
PLXNA2
plexin a2
XP_002196469
0
0.442
2.260
0.033
pol protein
XP_002196183
0
0.441
2.269
0.026
mitochondrial rho gtpase 1-like isoform 2
XP_002198633
0
0.436
2.291
0.001
unnamed protein product
YP_001610185
8.59E-05
0.433
2.310
0.013
williams-beuren syndrome chromosome region 16 homolog
XP_002191844
0
0.431
2.322
0.004
avdl_parai-20111027|19634
dna repair protein rad50
XP_002586206
5.01E-06
0.404
2.475
0.017
avdl_parai-20111027|1976
hypothetical protein
YP_004637945
2.98E-13
0.399
2.504
0.030
avdl_parai-20111027|2582
pol protein
XP_002198925
4.60E-166
0.389
2.569
0.001
avdl_parai-20111027|1685
avdl_parai-20111027|20817
RHOT1
avdl_parai-20111027|22746
avdl_parai-20111027|18904
WBSCR16
avdl_parai-20111027|22706
B3GALT4
udp-c:betagal beta-n-acetylglucosaminyltransferase 5
XP_002938731
1.59E-20
0.372
2.691
0.049
avdl_parai-20111027|22473
SSR4
translocon-associated protein subunit delta precursor
XP_001378149
8.16E-88
0.371
2.695
0.012
pol protein
XP_002196888
1.32E-29
0.330
3.031
0.005
XP_002194772
3.93E-91
0.325
3.074
0.004
P02609
2.28E-118
0.306
3.264
0.033
XP_417062
7.69E-156
0.298
3.356
0.002
c1orf37
XP_003212901
0
0.290
3.443
0.003
leucine-rich repeat and wd repeat-containing protein 1
XP_002193019
0
0.288
3.467
0.002
opticin
XP_003203890
8.68E-121
0.276
3.627
0.048
avdl_parai-20111027|9283
avdl_parai-20111027|20679
PKD1L2
polycystic kidney disease 1-like 2
avdl_parai-20111027|4304
MYLPF
myosin regulatory light chain skeletal muscle isoform
avdl_parai-20111027|16848
PHF11
phd finger protein 11
avdl_parai-20111027|21111
TMEM183A
avdl_parai-20111027|22112
LRWD1
avdl_parai-20111027|13132
OPTC
avdl_parai-20111027|10087
SDHC
2FBW_C
4.20E-64
0.267
3.742
0.002
centromere protein
NP_001041444
5.68E-20
0.256
3.908
0.040
transcription elongation factor 1 homolog
XP_003275806
8.35E-45
0.248
4.037
0.024
BAC85319
6.49E-09
0.223
4.488
0.007
thump domain-containing protein 1
XP_002192913
2.06E-129
0.221
4.528
0.001
avdl_parai-20111027|23166
conserved repeat domain protein
YP_002453960
3.81E-04
0.192
5.213
0.046
avdl_parai-20111027|21164
pol protein
XP_002198925
0
0.188
5.306
0.047
avdl_parai-20111027|21845
octopamine receptor oamb
XP_002648641
1.49E-08
0.158
6.336
0.000
cell adhesion molecule 2
XP_002191779
4.95E-162
0.115
8.675
0.017
avdl_parai-20111027|4674
pol protein
XP_002196183
0
0.096
10.399
0.006
avdl_parai-20111027|23223
hypothetical protein
ZP_04286975
2.35E-04
0.070
14.300
0.001
NP_075643
2.64E-92
0.059
17.036
0.000
avdl_parai-20111027|22594
avdl_parai-20111027|22115
ELOF1
avdl_parai-20111027|23136
avdl_parai-20111027|15605
avdl_parai-20111027|20232
succinate dehydrogenase subunit integral membrane 15kda
unnamed protein product
THUMPD1
CADM2
avdl_parai-20111027|21491
ETHE1
ethylmalonic encephalopathy 1
avdl_parai-20111027|3684
GINS4
dna replication complex gins protein sld5-like
XP_002194732
4.12E-131
0.000
>100
0.001
avdl_parai-20111027|18805
SPRY3
sprouty homolog 3
NP_001073204
1.63E-52
0.000
>100
0.030
For determination of the fold difference (Fold change) between the Alaska (AK) and Kansas (KS) populations (AK>KS or KS>AK), we
used the ratio of RPKM mean values. No detectable expression levels (RPKM mean value is 0 for all samples) are measured for
transcript IDs 3648 and 18805 (GINS4, and SPRY3, resp.) in Alaska chickadees, and transcript ID 4055 (TMEM171) in Kansas
chickadees, resulting in a fold difference of >100. Top Blast hits indicate protein sequences with the highest similarity and BLAST Evalue. The following genes are represented by multiple transcript isoforms, which may represent different protein isoforms: AGAP3,
CUTA, DRP2, EBP41, ETHE1, NAT8B, NELL1, PHF11, PTPN1, PTPRR, RGS7, RHOT1, RNF39, SAT1, SGSM2, SLMO2, THUMPD1, TMEM30A,
TCS2, and WBSCR16.