AMCG00003004 (vcl,LOC108426801)


Basic Information

Item Value
gene id AMCG00003004
gene name vcl,LOC108426801
gene type coding
species bowfin (Amia calva)
category of species ecological fish

Chromosome Information

Item Value
chromosome id CM030139.1
NCBI id CM030139.1
chromosome length 23121578
location 9501245 ~ 9524893 (-)
genome version AmiCal1_2021_bowfin_Genome

Sequence

>AMCG00003004
GTGGGGAAGGAGACTGTTCAGACCACTGAGGACCAGATAATGAAAAGGGACATGCCTCCTGCCTTTATTAAGGTTGAGACCGCCTGTACTAAGCTGGTCCAGGCAGCCCAGATGTTGAAAGCAGACCCCTACTCTGTCCCTGCTCGCGATTACCTCATTGATGGCTCCCGGGGCATTCTCTCTGGGACCTCGGACCTGCTCCTGACGTTCGATGAGGCTGAGGTGCGCAAAATTATCCGTGTGTGCAAAGGCATCCTGGAATACTTAACCGTGGCAGAAGTGGTGGAGACCATGGAAGATTTAGTAACGTACACTAAAAATCTGGGACCAGGAATGACAAAGATGGCCAAGATGATTGATGAGAGGCAGCAGGAGCTGACCCATCAGGAGCACAGAGTGATGCTCGTCAACTCCATGAACACCGTGAAGGAGCTGCTGCCTGTGCTCATATCAGCCATTAAAATCTATGTGACAACCAAAAGCTCCAAAAGCCAAGGCGTTGAAGAGTCTCTGAAGAACCGCAACTTCACCGTGGAGAAGATGAGCACCGAGATTAATGAGATCATCCGTGTGTTGCAGCTGACATCTTGGGACGAGGACGCCTGGGCTAACAAAGACACTGAAGCTATGAAGAGAGCCTTAGCGCTCATTGACTCCAAAATGAACCAGGCTAAAGGCTGGCTGAGAGACCCCAATGCCCAAGCAGGGGATACTGGAGAGCAGGCTGTGCGGCAGATCCTTGACGAAGCTGGGAAAGTCGGTGAGCTGTGTGCCGGCAAGGAGAGGAGAGACATTATGGGCACGGCCAAAACCCTGGGCCAGATGACTGACCAAGTGTCTGAGCTGCGTGCCAGAGGGCAGGGTGCTACTCCTGTTGCCATGCAGAAAGCCCAGCAGGTGTCTCAGGGCCTGGACATGCTAACGGCGAAGGTGGAGAATGCTGCCCGCAAACTGGAAGCCATGACCAACTCCAAGCAAGCCATTGCCAAGAGGATTGACGCTGCGCAGAACTGGCTGGCTGACCCCAATGGCGGCCCTGAGGGAGAGGAAAACATTCGTGGGATCCTGGCTGAAGCCAAGAAGATTGCAGATCTGTGCGAGGACCCCAAGGAGAGGGACGACATCCTGCGCTCCCTTGGGGAGATCGCTGGGCTGACAGCGAAACTCTCTGACCTCAGGAGGCAGGGCAAAGGTGACACTCCAGAAGCCAGGGCTTTAGCCAAACAGATTGCCACAGCTCTGCAGAACTTGCAGTCCAAGACCAACCGGGCCGTGGCCAACAGCAGGCCCGTGAAGGCAGCTGTCCACCTGGAAGGGAAAATCGAGCAGGCCCAGCGCTGGATAGACAACCCCAGTGTGGATGACCGCGGAGTTGGTCAGGCTGCCATCCGTGGGCTGGTGGCGGAGGGCCGTCGCCAGGCCAATGCCATGCTGGGTCCGAACCGGCAGGAGCTGCTGGGCAAGTGCGAGCGCGTGGAGCAGCTGATGGGGCAGTTGGCAGAGCTGGCGGCGCGGGGAGAGGGAGACGGTCCGCAGGCCCGGGCCATCGCTCATCAGCTTCAGGAATCCCTCAAAGACCTGAAGTCCAAGATGCAGGAGGCGATGACCCAAGAAGTGTCTGACATCTTCAGTGACACCACAACTCCAATCAAGCTGCTCGCTGTAGCGGCCACTGCCCCCCCGGACGCCCCAAACAGAGAGGAGGTGTTTGACGAACGTGCTGCTAACTTTGAACATCATGCTAACAAGCTGGGAGCGACGGCAGAGAAAGCTGCAGCTGTTGGGACTGCAAACAAAGGCACAGTGGAGGCAATCCAGGCCGCAgtGGTGTCGGCCGCCCGTATCTTGCTGAGGAACCCAGGCAACCAGGCAGCTTATGAACATTTTGAGACCATGAAGAATCAGTGGATCGACAATGTTGAAAAAATGACAGGGTTAGTGGATGAAGCCATTGACACCAAGTCCCTTCTGGATGCTTCTGAGGAGGCGATTAAGAAGGACATTGATAAGTGTCGCGTGGCGATGGCCAATGTTCAGCCCCAGATGCTAGTTGCTGGTGCCACCAGTATTGCACGCCGGGCCAATCGCATCCTGCTGGTGGCCAAGCGTGAGGTGGAGAACTCTGAGGATCCCAAGTTCCGGGAATCGGTGAAAGCTGCCTCTGATGAGCTCAGCAAGACCATCTCTCCAATGGTGATGGATGCCAAGGCTGTAGCTGGGAATATACAGGATCCAGGTCTGCAGAAGAGTTTCCTGGACTCTGGTTACAAGATCCTTGGTGCTGTGGCGAAGGTGAGGGAAGCTTTCCAACCACAGGAGCCAGActtccctcctccccctcctgaTCTGGACCAGCTGCACGTTAGTGATGAACCTGCTCCTCCCAAGCCCCCTCTGCCTGAGGGCGAGGTGCCCCCCCCAAGACCCCCACCCCCGGAGGAGAAGGACGAGGAGTTCCCCGAAATGGCCGGAGAGGTGGTCAACCAGCCCATGATGGTAGCTGCCCGGCAGCTGCACGATGAAGCCAGGAAGTGGTCCAGCAAGccTGATGTGACTGATGAGGGTATTGAGACCGCTGAGGCGGATGTAGATATAGATGATGAGGATGAAGCCGACGATATTGAGTTCGCCCTCCCCTCAGACAATGAAGACGATTACGAGCCCGAGCTGCTATTAATGCCCACCAATCAGCCCGTTAACCAGCCCTTGCTGGCTGCGGCTCGGGCTTTACATCAAGAAGCTCGCAAGTGGTCCAGTAAGGGCAATGACATCATCGGTGCAGCTAAGCGAATGGCCTTGCTGATGGCGGAAATGTCCCGTCTTGTGCGTGGCGGCAGTGGAAACAAGCGCGCCCTCATCCAGTGTGCCAAGGACATTGCCAAGGCTTCGGATGAGGTCACCCGGCTGGCCAAGGAAGTGGCCAAGCAGTGCACGGACAAGAGGATCCGAACCAACTTGCTCCAGgtgtgtgAGCGCATCCCCACCATCAGCACACAACTGAAAATCCTGTCTACTGTCAAGGCCACCATGTTGGGTCGCACCAACATCAGCGAAGAGGAGTCGGAGCAGGCGACTGAAATGCTGGTGCACAACGCGCAGAACCTGATGCAGTCCGTGAAAGAAACTGTGAGGGAAGCCGAGGCAGCGTCCATCAAGATTCGTACGGACGCCGGCTTCACCCTGCGCTGGGTCAGGAAGACCCCCTGGTACCAGTAAAGGTTCTCTCGTCTCCCTACACTAAACCGCCACCATGGGAGGTGACGGCAGCTTTTGGAGCAATGGAGAGGATGGAAATGACATATATATGGGGTTAGAAACAATGTTTGCAATACTTTAAACCTTTGtttgaatatgttttgtataaaaaaaaatgtattaaatacgAGTTTATCCTTTTTCATATTATCTAACATGGTAAAAGTATATTTAGGAGACAATCCGATCAAACAAGACCGTATAATTTCAATTGCTACAAGTGTAATCACGCCAGACTGGGAAATGGCTGTTTTTAGTAGTAAAACACTCTAAGTACAGGCTGTGATTGGTATTTTGGGTTTCCATAGTTAACCCACAATACTACAAAGCTAAGAAATATGAAGCTAGCCTGGAAAggcacaaacaaaaatgtaacatgaaTCTACGTAGCtgaggacatttattttttgttgcatttagGGCTTCAATTGTGGATTGAAGACAATTACCTCTTACATACATCCATTATGAAAACTAATTGCAATGTGTACTGTTTTGCTTCACGGGTTCCACACTGGTAAACTTGTGGTTAATTCTGGATCGCTCTCTAGTAACCATGTGTAATAGTATTGGTAATCAGGTATGCAGTTATCACCTTGGGATGCACACACGCAACATACAACgatatttcatattgtattcTGGCTGCTTCACACTAAATTATAGTATGCTAACATTAAAGAAACactgtgctttttatatttgtattgtacaaGGAGTTGAAGTTGGGTTGCTTATGAATTGCTATCATGGTAATTCATTACTATTAAGCAAACTACTTCATGTATATTACCATAATGCCTTCTATATAGGAGTGTCGTAAATTATgccaaagaatacatttttcctttaatggattgtttaatgttgaactgatttttattctttgtgtattttagaAATACCCCCATGCACACAATGCAAACGCTACAAAAAAAGGGctacatttattaacatttgaaccaagtttgtttttctggaatGGATAAAAACCTGTTTGCAAAGACTCTTAACGTCcaatttcatttaaacaaaacttaACGGTTCAgatctgtaaatgttttgaagatctgccctgacatttttataaaatcataacaatttcagttttgtgtttagCTTTTTAGAATCTGCCTTCAACAAACCATACaacaatttgtattaatgttgcAGTGAGATTATCCAGAGCAGCTAATGGTACATAACCCGATAAAAGCTTTATATAAAACCTCTGGactttcaaatacaaactaGTCAATGTTAGTATTAATATGctacatttaaatgcagtgtCAATGATCAGGTTTTAGTCAGACCCTACATTCTTGTGTATCATGTGGTGTAGGTTAAAGTTAGGGTGCtgaatctttttaaaaacaccaccaccTTTTGTAGGATGATTCTTAGTCCGgttaattgcaatttaaacCGGTTAACACATCTGTTCTTTGTCTCAGGAGTACATTCAGCTGAGATGGGTTTCCAAATATAATCAAGGTGCCCTTTCTCCGGATTGCATAATTAACTTGAATTGTTCCATATCATGAAAAATAACTCTACATCACTGCAGAAATGAGGTGCTGTCTGAAGAACACAGCTTTTTCCATGTTCTTTAAGTGATAATTGGGTTGACCTTCATACCACCCTTTTCAGTTCTACTTTATAGCCACTGGGAGGTTGCTGGCACTGTATTTTGATCGGCCTTGGAGTGGAGGACTGCAGTACAGCCTGAGTGTTTCTATTTCTCTTCCCAGTACTGCATTTCCTGCTGCTCACCCATAGcatacacaatacaaatgatAGTTTTCAGTCCCAAACTAATGCCTGCTAGTTGTTCGGTTACCCTCTGTAATATTTTGTAACACAGAAGTGCTTACAGGTGTGTTAAGGTAGCTGAAAAGATTTCTTTagcctttttgtatttgtgtgaatgaaaactgcattttgaatgtaaatatgaaactaCTGCAGTCTTGTTTTACAGTAACACATGAAGCCATCTGATCTCTgtgccttttaaataaaaaacgaaaGTTTGATAAAGTTCTAAATTtaacttgattttgttttctttgacacGATACACCTTTATAAGTATATAGCATATTCATTTGCTTCCACCCGTTTGCTGTGAATGAATACGATTAGAAATGTAGGCCATCCACAGGAGGCATAAATATCACTGCAAACTTAACTGATGTTTCTGGAATTTCCTGATCACTTACAAATCCTGTGATCAGTTCATGCTGTCACTTTTGAAACTCAAAGTGTAGAAGTCATCTGCCTTGTCACTTTTATAATAAAGAATTTTATAACCTTTTAA

Function

symbol description
vcl Enables several functions, including alpha-catenin binding activity; dystroglycan binding activity; and ubiquitin protein ligase binding activity. Involved in several processes, including cell-cell junction assembly; protein localization to cell surface; and regulation of establishment of endothelial barrier. Located in several cellular components, including cell-cell contact zone; costamere; and focal adhesion. Part of protein-containing complex. Implicated in dilated cardiomyopathy; dilated cardiomyopathy 1W; hypertrophic cardiomyopathy; and hypertrophic cardiomyopathy 15.

NR:

description
PREDICTED: vinculin isoform X2

GO:

id name namespace
GO:0045214 sarcomere organization biological_process
GO:0007155 cell adhesion biological_process
GO:0060047 heart contraction biological_process
GO:0015629 actin cytoskeleton cellular_component
GO:0005198 structural molecule activity molecular_function

KEGG:

id description
K05700 VCL; vinculin

RNA

RNA id representative length rna type GC content exon number start site end site
AMCG00003004 True 5578 mRNA 0.47 21 9501245 9524893

Neighbor

gene id symbol gene type direction distance location
AMCG00003003 LOC103355368,LOC107084594,LOC107666490,LOC107601874 coding downstream 60505 9434060 ~ 9440740 (-)
AMCG00003006 adka coding downstream 117243 9371373 ~ 9384002 (-)
AMCG00003000 kat6b,LOC102792766 coding downstream 154347 9325459 ~ 9346898 (-)
AMCG00002999 samd8 coding downstream 202526 9284549 ~ 9298719 (-)
AMCG00003001 vdac2,LOC108444242,LOC107747461,LOC107582506,LOC107690181 coding downstream 220008 9274213 ~ 9281237 (-)
AMCG00003005 NA coding upstream 21105 9545998 ~ 9554667 (-)
AMCG00003012 NA coding upstream 82889 9607782 ~ 9621040 (-)
AMCG00003010 gcp2,tubgcp2,LOC106589265 coding upstream 96987 9621880 ~ 9629686 (-)
AMCG00003016 NA coding upstream 112898 9637791 ~ 9638216 (-)
AMCG00003014 NA coding upstream 176742 9701635 ~ 9728640 (-)
G140016 NA non-coding downstream 258258 9237868 ~ 9242987 (-)
G140014 NA non-coding downstream 264943 9236022 ~ 9236302 (-)
G140009 znf503,LOC107708443,LOC101070189 non-coding downstream 344683 9150816 ~ 9156562 (-)
G140007 NA non-coding downstream 568276 8932770 ~ 8932969 (-)
G140005 NA non-coding downstream 650686 8849669 ~ 8850559 (-)
G140093 NA non-coding upstream 15451 9540344 ~ 9540553 (-)
G140174 NA non-coding upstream 215761 9740654 ~ 9740940 (-)
G140199 NA non-coding upstream 240760 9765653 ~ 9771507 (-)
G140217 NA non-coding upstream 324002 9848895 ~ 9853413 (-)
G140228 NA non-coding upstream 364265 9889158 ~ 9889626 (-)
G140015 NA other downstream 263515 9236658 ~ 9237730 (-)
G140006 NA other downstream 653405 8847032 ~ 8847840 (-)
G139933 LOC108443181 other downstream 1006649 8485361 ~ 8494596 (-)
AMCG00002970 cj104,anapc16 other downstream 1563004 7931166 ~ 7938241 (-)
AMCG00002945 NA other downstream 2148424 7348811 ~ 7352821 (-)
AMCG00003017 NA other upstream 72050 9596943 ~ 9607316 (-)
AMCG00003049 NA other upstream 776907 10301800 ~ 10331372 (-)
AMCG00003110 LOC107699307,LOC108442385,LOC108263686,LOC107727357,LOC105890865,LOC104955882 other upstream 2083570 11608463 ~ 11622649 (-)
G140758 NA other upstream 2115923 11640816 ~ 11647619 (-)
G140757 NA other upstream 2169113 11694006 ~ 11733762 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000090_00530446_00541286 VCLB, VCL coding CI01000090 null 530446 ~ 541392 (-)