XLOC_003656 (vamp3)


Basic Information

Item Value
gene id XLOC_003656
gene name vamp3
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 39928828 ~ 39956925 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00007107
gtgtgtgcgtgtgctatATTCTACGTGCACGCGCGCGCTGACGCTCACTCGCTTACACAGTAATAACAGTTGTATCATCATCAGCGGGCCTTCACAAATCACACATCAACTCAACAAACATGTCCGCTCCAGGTGCAGATGCCTCTGGATCTTCAGGGAGTAACCGCAGGCTGCAGCAGACACAGGCTCAGGTCGATGAGGTGGTGGATATCATGAGAGTGAATGTTGATAAAGTCCTGGAACGAGACCAGAAGCTGTCAGAGCTGGATGATCGTGCTGATGCCCTGCAGGCCGGAGCGTCTCAGTTTGAGACCAGCGCCGCCAAACTCAAGAGGAAATTCTGGTGGAAGAACGTCAAGATGTGGGCCATTTTGATAGCTGTGGTTGtgatcatcattatcatcattgtcAtCTGGTCGCAGTCATAAAGTGGCACAGAGTCTGGTTGTGATCGGAGGAAAAGATCAGGATATGAAGGAGTATTCACTTCAGAAAgaagagtgaatgaatgaacaaccgGTTGCTCTTCCAATAAGTTCTAACCTGCTGATTTTCAAATGCATATTTTGTAAACTATCTTCAatgggttttttttcttttaggttttgtttttaatgactAGATTTGAATATGTTATGAATTCAATTCCAAAATACATCAAACACACTCCTTTTGTGCTCAGCAAGTGAGACGTGTTACATAATTActcagaaacacacaaacaacaggtTGCCATCATAATATATCGACCAAAACCCATCTAAACTCTTGTTTTGAAAGCCATCTGAGTTCCTCGTGGACTGTATTTTATCAGACTGCTGAAATCAGACACTCTTTCTGTGTCAACATGATATGAGAGCCTTTCCTGAACAACCACAGACGTGCCATTAGATATACCAGCAGATAAACTCCACTGCCAACCTCTAATGAAACACCTGCacagaaatattatatataagatTGAGATATTATTGAATTTTGAAGTGATCACTCGCTAGTAATTTAACTGCCTTATATCTATTGCCTTGTGTAGAATTAATTTGCTTAGAAATAGCTTCGCTTAACAAGATCTCAGTAGTATTGAATTTTTGGGGGGCTTTCTTCACCTCTTGCTCACGGTGCCAAAACTTTTTTATGCTATGTTTGAGCTTATTTTGTATGTGTCTCTTTGTATGTCTCACATGTGTATAAATTGTAAACAAGTGCAATTCTATACTGTGGCCTTACAAACTGAATTGCCCCAAGTTGGCTTAATAAACCCAGGATTTAACATCCTTTTGTACTCAC
>TCONS_00007108
ACAGTAATAACAGTTGTATCATCATCAGCGGGCCTTCACAAATCACACATCAACTCAACAAACATGTCCGCTCCAGGTGCAGATGCCTCTGGATCTTCAGGGAGTAACCGCAGGCTGCAGCAGACACAGGCTCAGGTCGATGAGGTGGTGGATATCATGAGAGTGAATGTTGATAAAGTCCTGGAACGAGACCAGAAGCTGTCAGAGCTGGATGATCGTGCTGATGCCCTGCAGGCCGGAGCGTCTCAGTTTGAGACCAGCGCCGCCAAACTCAAGAGGAAATTCTGGTGGAAGAACGTCAAGATGTGGGCCATTTTGATAGCTGTGGTTGtgatcatcattatcatcattgtcAGTAAGTTTCACTTGAGGTGGCAGCAGTGT
>TCONS_00007109
CAACCGTCACTAATAAACACAAGTCTTCTTTGTAAAATCAATTTAGAAAGGAGCACGTATCGAGTCTAACTGCTGGAGGATTTCACCGCTGAGATTCCTGCAGTGACCACATGATCTGAGGGCAAACGGTGCCTTCCACGTCTGGGTGTggaatGTCCGCTCCAGGTGCAGATGCCTCTGGATCTTCAGGGAGTAACCGCAGGCTGCAGCAGACACAGGCTCAGGTCGATGAGGTGGTGGATATCATGAGAGTGAATGTTGATAAAGTCCTGGAACGAGACCAGAAGCTGTCAGAGCTGGATGATCGTGCTGATGCCCTGCAGGCCGGAGCGTCTCAGTTTGAGACCAGCGCCGCCAAACTCAAGAGGAAATTCTGGTGGAAGAACGTCAAGATGTGGGCCATTTTGATAGCTGTGGTTGtgatcatcattatcatcattgtcAtCTGGTCGCAGTCATAAAGTGGCACAGAGTCTGGTTGTGATCGGAGGAAAAGATCAGGATATGAAGGAGTATTCACTTCAGAAAgaagagtgaatgaatgaacaaccgGTTGCTCTTCCAATAAGTTCTAACCTGCTGATTTTCAAATGCATATTTTGTAAACTATCTTCAatgggttttttttcttttaggttttgtttttaatgactAGATTTGAATATGTTATGAATTCAATTCCAAAATACATCAAACACACTCCTTTTGTGCTCAGCAAGTGAGACGTGTTACATAATTActcagaaacacacaaacaacaggtTGCCATCATAATATATCGACCAAAACCCATCTAAACTCTTGTTTTGAAAGCCATCTGAGTTCCTCGTGGACTGTATTTTATCAGACTGCTGAAATCAGACACTCTTTCTGTGTCAACATGATATGAGAGCCTTTCCTGAACAACCACAGACGTGCCATTAGATATACCAGCAGATAAACTCCACTGCCAACCTCTAATGAAACACCTGCacagaaatattatatataagatTGAGATATTATTGAATTTTGAAGTGATCACTCGCTAGTAATTTAACTGCCTTATATCTATTGCCTTGTGTAGAATTAATTTGCTTAGAAATAGCTTCGCTTAACAAGATCTCAGTAGTATTGAATTTTTGGGGGGCTTTCTTCACCTCTTGCTCACGGTGCCAAAACTTTTTTATGCTATGTTTGAGCTTATTTTGTATGTGTCTCTTTGTATGTCTCACATGTGTATAAATTGTAAACAAGTGCAATTCTATACTGTGGCCTTACAAACTGAATTGCCCCAAGTTGGCTTAATAAACCCAGGATTTAACATCCTTTTGTACTCACCTTAATTTTGTTTCTTgccatgttttattattatattctacaAAATGTGTGTTcacaaatttattcattcattttcgtccGTTTTTCCGTGGCCGGGTCACGGggacagcagtcttaggagacAATCCCAGACTTCActctccagacacttcctccagctcctccgggggatcCTGAGgctttcccaggccagccgagatatatagtccctccagcgtgtactgtaagggtgtcacgatcctccaaatcctcgattcgattacatttttgattctaaaggcacgattcgattcgattatgaataattaattaattaatgaccaattaattatttgtagcctaccgtttaaaccacctgacctgcatggtctttgttttacccataaacaaatcatacagtaaatgaataaaggcaagatacacacataattaccacctgtcaatcactttttctgcgggactcgtgaatgggcagtgatctgtgtcgttataatggcgtcggtaaaaaagacgcacaacaggaaccagccaacagtatctgaggtgttcgctaaaatgactaagtacaagtgagtgaaagcttgaagcagtcctctgactgcctggacctgctgtctcgagcgcatggctgtgtgtgcgtctgtgtctgtgtggtcatgtgatgtgcattcagaggtagagaggaaggagggctgctcagaaacgctacacgccactgtggatgtcaaatcgttgtcgttctaaaatgccatttaaaaacaaagacagtgtaaacagggcctgagtgtgtacttttcgcgagcggatttgcaacgggggtggACGGAGGAACGCGATGccagtgttgtctatcggacgaaccgtacgtaatacgtaaatagcagagcttgcaaaactgtggggtttttttgtcgacaacacgaacgttgtcaacataactcactggaaatccaaaatgcttacacaccggcgacttcattgaaagaggagagggtttaagttctgtcgacgggtctcctgcttttgcagtttaacaagcacttccacaagcctgtttttttcccgcttggcaagccaagctgacgtgacatgggggtgtggcagcatcgacgattctattttttaattcgataatcgaaattgagcataaatttcgatcgatttcgattaaaaatctaaatcgtgaaACCCCTAGTGTACTGGGTCTTTTCCGAGGCCTCCTCcctgtgggacatgcctggaacacctcaattggtaggcatccaggaggcatccgaaacagatgcccgagccacctcagttgacttctcttgatgtggaggagcagcggctcaacTTCGAgttcctcccgggtgacagatcTCCTCACCTTAAGGGTGCGCCCTTCCGCCATGCAAACAAAACTCATTCTGgtcacttgtatccgagatcttgtctttGACCCAAACCTCATGACCATAGTTGAGAGTAGGAGCGTAGATTAaccggtaaattgagagctttgcctttcggctcagctcctccTTTACCACAACgcaccggtacatcgaccgcatcactgctgcaccaatccccatcaatctcacgttccatcgtTCTCTCACTCGTGAACTCAGGTGTTCTCAAGTGTTCACAAATGAGAAATATAAATGTGCAACCAAAAATGaactttaaaatgtcttaatgcTAAAACAGATGCAGAAACAACATTTAACAGTTTAAGTTTCTATCCACCTTGTTTTTTAGGTAACTTGCTGTTAATGTTTTATAGTAGTATTCTGATTTTTGGTCTGATACTTCTATATCATTAGCAGTAATAAAGGCATCttgtgaaattaaattattttagaaaattattttaatgtaatatcaTAAAAACATTGTTTAGCTCAAGTGATATTGTTTgtaattaaccctttaactgccccaccaaataaaaaaacatttgaattgcattacttAACTCCTCATGTCGCTaattaacacactcaatgcatttttttcccacACATCccttaatttctaaaatatcagcctctaccaaatgcttgatatgtcagtttatggttgaagtaccagaattaatacatatactattaaaaatctgaaaatatcaaGTGCTAgtgttaaaaaaatcattttgagtTTCCAAAACACACAGTTAGGTCGATAAATATTTGGACAAACAATTGTAAAATTTTTGGCTctttacaccaacacaatggaaaTGAAACGAACAAGACGTGCtgtaactgcagactgtcagcctTAATTTAaaggtatttacatccaaatcaggtgaacgctgtagga

Function

symbol description
vamp3 Predicted to enable SNAP receptor activity and syntaxin-1 binding activity. Predicted to be involved in SNARE complex assembly. Predicted to act upstream of or within vesicle-mediated transport. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be part of SNARE complex. Predicted to be active in plasma membrane. Orthologous to human VAMP3 (vesicle associated membrane protein 3).

GO:

id name namespace
GO:0035493 SNARE complex assembly biological_process
GO:0006906 vesicle fusion biological_process
GO:0016192 vesicle-mediated transport biological_process
GO:0005886 plasma membrane cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0031201 SNARE complex cellular_component
GO:0005484 SNAP receptor activity molecular_function
GO:0017075 syntaxin-1 binding molecular_function
GO:0019905 syntaxin binding molecular_function

KEGG:

id description
ko04130 SNARE interactions in vesicular transport
ko04145 Phagosome
ko04131 Membrane trafficking

ZFIN:

id description
ZDB-GENE-040625-45 Predicted to enable SNAP receptor activity and syntaxin-1 binding activity. Predicted to be involved in SNARE complex assembly. Predicted to act upstream of or within vesicle-mediated transport. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be part of SNARE complex. Predicted to be active in plasma membrane. Orthologous to human VAMP3 (vesicle associated membrane protein 3).

Ensembl:

ensembl_id ENSDARG00000070161

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00007107 False 1287 mRNA 0.41 5 39928828 39954612
TCONS_00007108 False 384 mRNA 0.49 4 39928884 39953618
TCONS_00007109 True 3633 mRNA 0.41 5 39935154 39956925

Neighbor

gene id symbol gene type direction distance location
XLOC_003655 NA coding upstream 1956 39576541 ~ 39926872 (+)
XLOC_003654 NA coding upstream 449561 39373712 ~ 39479267 (+)
XLOC_003653 NA coding upstream 638194 39287369 ~ 39290634 (+)
XLOC_003652 NA coding upstream 644852 39262536 ~ 39283976 (+)
XLOC_003651 NA coding upstream 647937 39187531 ~ 39280891 (+)
XLOC_003657 per3 coding downstream 2114 39959039 ~ 40021080 (+)
XLOC_003658 si:dkey-264d12.1 coding downstream 75865 40032790 ~ 40072301 (+)
XLOC_003659 NA coding downstream 154556 40111481 ~ 40116646 (+)
XLOC_003660 si:dkey-264d12.5 coding downstream 191256 40148181 ~ 40168378 (+)
XLOC_003661 si:ch211-193i15.1 coding downstream 251314 40208239 ~ 40215554 (+)
XLOC_003369 CR854846.2 misc upstream 23805746 16122786 ~ 16123082 (+)
XLOC_003318 CR450764.6 misc upstream 27216832 12711700 ~ 12711996 (+)
XLOC_003317 CR450764.16 misc upstream 27234565 12693967 ~ 12694263 (+)
XLOC_003316 CR450764.11 misc upstream 27243229 12685304 ~ 12685599 (+)
XLOC_003315 CR450764.18 misc upstream 27248800 12679732 ~ 12680028 (+)
XLOC_003662 NA non-coding downstream 263130 40220055 ~ 40434080 (+)
XLOC_003669 NA non-coding downstream 908030 40864955 ~ 40865542 (+)
XLOC_003670 CABZ01044767.1 non-coding downstream 932255 40889180 ~ 40889294 (+)
XLOC_003671 NA non-coding downstream 934756 40891681 ~ 40956123 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location