XLOC_014567 (vamp1)


Basic Information

Item Value
gene id XLOC_014567
gene name vamp1
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007130.7
NCBI id CM002903.2
chromosome length 48449771
location 9460432 ~ 9472935 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00028799
GCGGACACGAGAGGACTATTATTTTTTCCGTCCAGGTCGTTTAAATCTATTCTAGAGACGCATTTATCATGCTAGTGTTTCTTGGTTTACTGCTATTTCCAACAGCCTAACAAAAGTTGAAGCCTGTCATTTTAATTAAGTCGTCACTTGACTGCGTATATATTTTTCCCAATACCTGTTCTCAGGAGGATACATTTATAGTTTTTCGCCTCCTGTGTGAAAACTGAAGGCTTTTCTTACCGAAGACTGGGATTGGTGTTTCGAGGCTTTATTCGCCTGAGGCTCTTTCGGTAATGCAGCACTTTTTTGTGATGACGCGGTCTAGACATCTTTACCATCCTCGGGGGAATGTCGTTTACTGCATTGATATAGAGTTGATTATGAGGAATACTTTGTGCTTTTTCTACCTGCTGTGTGCTTTTGTCGTCAATGTAGGAAGTTTGGCTGTTGACTActaatcctctctctctctctctcgtcctCTCTCTTTTTTCTGCATCCTCGGTGACGACGGTCTGTTCTATAAAGCACCTGCCAACAAAATGTCTGCCCCAGATGCTGCCGCAAGCCCTGGAGCCCCAGGAGCCCCAGAGGGTGAGGGAGGCGCGCCAGCCCAACCTCCAAACCTCACTAGCAACCGCCGTCTCCAGCAGACACAGGCCCAAGTGGATGAGGTGGTTGACATCATGCGTGTGAATGTGGACAAGGTTCTGGAAAGAGATCAGAAGCTGTCAGAATTGGACGACCGGGCAGACGCACTGCAGGCCGGAGCATCACAGTTTGAGAGCAGCGCTGCCAAGCTAAAAAACAAGTACTGGTGGAAGAACATGAAGatgatgataataatgggAATAATGGGGATCATCTTGTTGGGTATTGCTTTCATGTACTTCTACTACTGAGCCTCTGGTGGGACACACAAGGACAGGCGATGTTGGCTTTGTGTGAACTCCACCCCTCCTTCTCTCCCCACCAATGCCTTTCATTGAATCCACAGTGTGTGTGCGAATGCGTGTGAGTGCAGTCATTGACGCAGTGCCTCTCCCTCCCTTTGTCTGTCACTGCATTTCTTTGTACCTTTCTTGAGTGCTTTGCAACAGTGCCCGAGCTttactcaacaaaaaaaaaaaaaaaattggttaggAATATCTGTGTGGTTTTAGTTTGGAGAATGTGTTGGTCCTTTTCAGGggcccccaaaaaataaataaacaaaaaaaaagggtgATGCAATAATATAGATTTGTAGCGCTGGTCCGAATGAGCCCATGATTAACTAGAGGAAACGCAAAGATTAAGTTTAGGATCAAGTCATACATCTATGCACAGAAGCCAAAGTGTTTTACCCAGAAACGGCCTATGGTTCCATtcggaaaaataaataaaagagtaaaTATTATTACTCTGGTATTTTTGGAGGATAATGTATTGCCGTCATCCTTATAGATTCCTAACTCGATTTCCTTTCTCGTTTATAAACAAAGCTAAATGATTTCTTTCCGTAATGTTGACATCTGGATGGTACATTTTATAATTCGTTTGACATTTTAAAGATGTTGCACTCGATTTAAAGGATATTTGATTATGAATGGTCTCTTTTAAGCATAGCAGAAGACTAATGGAGGTggaaagaaagtaaataaaatggTGTAAACAAAGTATTTTCTTCtatatttgattttatattttccCATGTGACAGTACGGTCACCAATGCAATTCTATACAGATGTATTTCAAGCTAAATAAAAGCTTGATAAATAAAAGTGTACAACTAGTGTTGTTATACCCGAACACCTCCTGACGTTACCATTTAGAATGAACTACTGATATGCAAACTGAAGGATAACGTGACTCAATGTATATATCATTTAGGATTCAGTGTGGGACTTACCCAGCACTGGAAATGACATCGTTCAGGGATGATCctctgcatgtgtttgtgtgaaacCTACATGGGCACTTTAACCACCTTCGTAAATAGTGATTGTACgattttctgttgttgttgttggggtATTAAGGACATATTGTCCAACACCTGAAATTTTGCTGTTATTGGTGTAACATTTTAATGCAAGCTCGTCATGTGTGAATAACATCCCCGTCATTAAGCATTAACCCAAATTGCAGGGCAGCGAATGTCTttccttcattaaaaaaaaaagatcctgaATTCATTGTGTTTTATGCAACCCGTTCCATTTGTAAATATGTGCTGCAGAGATAAACAACAGATCCTTCGCATTTGGAGCCAAGCTGCTAACTTGTGGTTTATTTGAAAGCATGTCTGCTTGCCCACCATGTGCTGATTCTAATAAAGTGCTGATGCTGTTATTCGCT
>TCONS_00028800
ccccTCCCCTTCTCTCTCACTCAGGCATACATACACTTTCATGCGGACACGAGAGGACTATTATTTTTTCCGTCCAGGTCGTTTAAATCTATTCTAGAGACGCATTTATCATGCTAGTGTTTCTTGGTTTACTGCTATTTCCAACAGCCTAACAAAAGTTGAAGCCTGTCATTTTAATTAAGTCGTCACTTGACTGCGTATATATTTTTCCCAATACCTGTTCTCAGGAGGATACATTTATAGTTTTTCGCCTCCTGTGTGAAAACTGAAGGCTTTTCTTACCGAAGACTGGGATTGGTGTTTCGAGGCTTTATTCGCCTGAGGCTCTTTCGCACCTGCCAACAAAATGTCTGCCCCAGATGCTGCCGCAAGCCCTGGAGCCCCAGGAGCCCCAGAGGGTGAGGGAGGCGCGCCAGCCCAACCTCCAAACCTCACTAGCAACCGCCGTCTCCAGCAGACACAGGCCCAAGTGGATGAGGTGGTTGACATCATGCGTGTGAATGTGGACAAGGTTCTGGAAAGAGATCAGAAGCTGTCAGAATTGGACGACCGGGCAGACGCACTGCAGGCCGGAGCATCACAGTTTGAGAGCAGCGCTGCCAAGCTAAAAAACAAGTACTGGTGGAAGAACATGAAGatgatgataataatgggAATAATGGGGATCATCTTGTTGGGTATTGCTTTCATGTACTTCTACTACTGAGCCTCTGGTGGGACACACAAGGACAGGCGATGTTGGCTTTGTGTGAACTCCACCCCTCCTTCTCTCCCCACCAATGCCTTTCATTGAATCCACAGTGTGTGTGCGAATGCGTGTGAGTGCAGTCATTGACGCAGTGCCTCTCCCTCCCTTTGTCTGTCACTGCATTTCTTTGTACCTTTCTTGAGTGCTTTGCAACAGTGCCCGAGCTttactcaacaaaaaaaaaaaaaaaattggttaggAATATCTGTGTGGTTTTAGTTTGGAGAATGTGTTGGTCCTTTTCAGGggcccccaaaaaataaataaacaaaaaaaaagggtgATGCAATAATATAGATTTGTAGCGCTGGTCCGAATGAGCCCATGATTAACTAGAGGAAACGCAAAGATTAAGTTTAGGATCAAGTCATACATCTATGCACAGAAGCCAAAGTGTTTTACCCAGAAACGGCCTATGGTTCCATtcggaaaaataaataaaagagtaaaTATTATTACTCTGGTATTTTTGGAGGATAATGTATTGCCGTCATCCTTATAGATTCCTAACTCGATTTCCTTTCTCGTTTATAAACAAAGCTAAATGATTTCTTTCCGTAATGTTGACATCTGGATGGTACATTTTATAATTCGTTTGACATTTTAAAGATGTTGCACTCGATTTAAAGGATATTTGATTATGAATGGTCTCTTTTAAGCATAGCAGAAGACTAATGGAGGTggaaagaaagtaaataaaatggTGTAAACAAAGTATTTTCTTCtatatttgattttatattttccCATGTGACAGTACGGTCACCAATGCAATTCTATACAGATGTATTTCAAGCTAAATAAAAGCTTGATAAATAAAAGTGTACAACTAGTGTTGTTATACCCGAACACCTCCTGACGTTACCATTTAGAATGAACTACTGATATGCAAACTGAAGGATAACGTGACTCAATGTATATATCATTTAGGATTCAGTGTGGGACTTACCCAGCACTGGAAATGACATCGTTCAGGGATGATCctctgcatgtgtttgtgtgaaacCTACATGGGCACTTTAACCACCTTCGTAAATAGTGATTGTACgattttctgttgttgttgttggggtATTAAGGACATATTGTCCAACACCTGAAATTTTGCTGTTATTGGTGTAACATTTTAATGCAAGCTCGTCATGTGTGAATAACATCCCCGTCATTAAGCATTAACCCAAATTGCAGGGCAGCGAATGTCTttccttcattaaaaaaaaaagatcctgaATTCATTGTGTTTTATGCAACCCGTTCCATTTGTAAATATGTGCTGCAGAGATAAACAACAGATCCTTCGCATTTGGAGCCAAGCTGCTAACTTGTGGTTTATTTGAAAGCATGTCTGCTTGCCCACCATGTGCTGATTCTAATAAAGTGCTGATGCTGTTATTCGCT

Function

symbol description
vamp1 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. Is expressed in nervous system and neural tube. Human ortholog(s) of this gene implicated in congenital myasthenic syndrome and spastic ataxia 1. Orthologous to human VAMP1 (vesicle associated membrane protein 1).

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
ko04131 Membrane trafficking

ZFIN:

id description
ZDB-GENE-040426-2725 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. Is expressed in nervous system and neural tube. Human ortholog(s) of this gene implicated in congenital myasthenic syndrome and spastic ataxia 1. Orthologous to human VAMP1 (vesicle associated membrane protein 1).

Ensembl:

ensembl_id ENSDARG00000031283

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00028799 False 2342 mRNA 0.41 5 9460432 9472893
TCONS_00028800 True 2146 mRNA 0.41 6 9460432 9472935
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Neighbor

gene id symbol gene type direction distance location
XLOC_014566 NA coding downstream 103 9457546 ~ 9460329 (-)
XLOC_014565 NA coding downstream 61966 9391235 ~ 9398466 (-)
XLOC_014564 NA coding downstream 78411 9381458 ~ 9382021 (-)
XLOC_014563 CR391915.1 coding downstream 226399 9232539 ~ 9234033 (-)
XLOC_014562 NA coding downstream 273998 9176427 ~ 9186434 (-)
XLOC_014568 iffo1a coding upstream 8763 9481698 ~ 9503473 (-)
XLOC_014569 ing4 coding upstream 40047 9512982 ~ 9522548 (-)
XLOC_014570 NA coding upstream 121932 9594867 ~ 9609512 (-)
XLOC_014571 clcn1a coding upstream 139228 9612163 ~ 9662958 (-)
XLOC_014572 BX927218.2 coding upstream 203582 9676517 ~ 9683508 (-)
XLOC_014711 CR382300.3 misc upstream 10255755 19728690 ~ 19728755 (-)
XLOC_014578 NA non-coding upstream 431389 9904324 ~ 9906939 (-)
XLOC_014580 BX950852.1 non-coding upstream 539563 10012498 ~ 10012614 (-)
XLOC_014581 BX950852.2 non-coding upstream 650298 10123233 ~ 10123347 (-)

Expression

Expression of XLOC_014567(vamp1) in the Zebrafish Sample from each Developmental Stage of PRJEB12982

Boxplot with 18 boxes. Box plot charts are typically used to display groups of statistical data. Each data point in the chart can have up to 5 values: minimum, lower quartile, median, upper quartile, and maximum.
The chart has 1 X axis displaying categories.
The chart has 1 Y axis displaying Expression. Range: 0 to 100.
End of interactive chart.

Expression of XLOC_014567(vamp1) in the Zebrafish Sample of PRJEB12982

Bar chart with 360 bars.
The chart has 1 X axis displaying categories.
The chart has 1 Y axis displaying Expression. Range: 0 to 100.
End of interactive chart.

Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000321_04223582_04224440 NA coding CI01000321 null 4223582 ~ 4225511 (+)