XLOC_031847 (vps16)


Basic Information

Item Value
gene id XLOC_031847
gene name vps16
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007117.7
NCBI id CM002890.2
chromosome length 60270059
location 9107063 ~ 9130843 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00062374
GATGACAGAGGAAGAGATGGGCGAAAGAGAAtgataaacagaataaaaatatacTCATAATGCAGCGCTAACTGGAACATTCATAATAAGGTTTCACATATTTGGCAGATTCAGCAGCATAGGTCGGTCATGGCGTTTGTTACAGCGAACTGGAACCCTCTGGGCGAGGCTTTTTACAGAAAGATTGAATTGTATGAGATGGCCTGGAAACTCAAAGACGGTCTGAAAGATTGTCTGTTTGCTGCAGCTCCATACGGGGGTCCCATTGCTCTCCTAAAATGGCACAACCGACGTTCTCCCAGTGCCAGACCACAGTTAGAGATCTACTCTTCTTCAGGACTCCCTCTGGCCAGCTTTCCATGGAAGAGTGGTGTGGTGAAGCAGTTGGGATGGACGGTGTCTGACGACCTACTGTGTGTTCAGGAGGACGGCACTGTGCTCGTCTATGATCTCTTGGGCGGCTTCAAGAGACACTTCAGCATGGGCAATGAAGTTTCTCAGAGTCAGGTGCTGGAGACCAAGATTTTTCATTCACCCTATGGCACAGGGGTTGCCATATTGACAGGTGCCTTGCGGTTCACTTTGGCCACAAACATTGATGACATCAAACTGAGGAGGCTACCTGAGGTTCCAGGTATCCAGGCAGCGCCATCATGTTGGGCAGTGCTGACTCAGGACCGACAAAGTAAAGTCCTGGTGGCCAGTGGTGCTCATCTGTTCATCTTGGACAATACAGCCTGCACTCCTGTGACTCCTCCAGGCCTCTCTCCACAAGCGTCCAGTATACTTCACATGTGTGTCTCATTCAGTTATAAATATCTTGCACTCCTCACCGACTCTGGCCATGTGTGGATGGGCACATCCAATCTAAAGGAGAAACTCAGTGAGGTCGAAACCAAAATCAAAACACCCCCCAGACAGATGGCATGGTGTCGCAGGCCCAAGAGTCAGGAGCCTTCGGCAGTGGTCATGTGGGACGGGCTTCTCCTGGTGGTCGGAGAGTGTAAAGAAACAATTCAGTATCAACTGGATGATGATTCAATCCTGGTCCCGGAGCTAGATGGGGTTCGGATCATCAGTGGAACACACCATGAGCTTTTGCAAGAGGTCCCAGGTGCTTGTGAGGAGATATTTAAAATTGCCTCAATGGCTCCTGGAGCTTTACTGCTGGAGGCACATAAAGAATATGAGAAAGAGAGTCAGAAGGCAGACGAGTATCTGAGAGAGATTAAAGAGCAGAGTCTGCTGAGCGAAGCGGTACAACAGTGTGTGGAAGCCGCCGGGCATGAACATGAACCCGAGACACAGAAAACACTCTTGAGGGCGGCTTCGTTTGGGAAGTGTTTCTTGAGTAATTTTCCTCCGGAGCAGTTCGTCAGTATGTGCCGAGACCTGCGAGTGTTGAATGCTGTTCGAGATTATACCATAGGCATTCCTCTGACCCACACTCAGTTCAAGCAGATGACCGTACAGGTGCTCATCGACAGATTGGTTTATCGTAAACTCTATCCACTGGCTATTGAGGTTTGCAGATATCTGAAGACTCCGGAATATCAGGGAGTAAGTCGTGTGCTCAAACACTGGGCCTGCTTCAAgGTCCAGCAGAAGGAGGAATCTGATGAAGTCATTGCAAAAGCTGTGAGTGTGAAGCTCGCCGATGCTGCTGGAATCTCCTACTCTGAAATCGCCACCAAAGCATACGAGAGCGGACGAACGGAGCTCGCCATTAAGCTGTTGGAGTTTGAGCCTCGCTCTGGTGAACAGGTCCCACTGCTGCTGAAAATGAAGAAAAGTCCTCTGGCTTTGAGCAAAGCCATTGAGAGTGGCGACACAGACCTCgTGTACACCGTGGTGATGTACCTGAAGAATGAGCTAAACAGAGGAGACTTCTTCATGATGTTGAGGAACCAACCTGTGGCTCTGAGCCTCTACAGACAGTTTTGTAAACATCAGGAGCAGGATACGCTGAAAGATCTTTTCAATCAAGATGACGATCACGAGGAACTGGGCAATTTCTACGTAAAAGCCAGCTATAAAGAGCAGAGACTGGAAGCACGGATTGCTCTTTTACAAAGTGCCGTGGACGAGTACTACAAGGCCAAGAATGAGTTTTCTGCCAAGAGCACAGAAGACGAGATGCGTCTGCTGCGGTTTCAGAGGAAGCTGGAGGAAGAGAAGGGCGAGCCTCTTGTGGGCTTTTCTCTTCATGACACTATGACCACACTGCTGTCTGTGGGACTGCACAAACACGCAGAACAGCTTTACAAAGACTTCAGAGTGCCTGATAAGAGGTTCTGGTGGCTAAAGTTGAAGGCTCTTGCTGAGAAGGAGGACTGGGACGAGCTGGAGAAATTTGCCAAAAGCAAAAAGTCTCCTATTGGATATCTGCCATTCGTAGATGTGTGTATTAAACATCATAACAAATATGAAGCCAGGAAATATGTGTCTAAAGTCACACCCGAGCAGAAGGTCAAAGCTCACCTCGCAGTGGGGGACATGGAAGGTGCTGCAGAGGCTGCTATCGAGAGGCGTAATGACACTGAGATCAGCACAGTTCTCTCACGCTGTTCATCGACCACTGATCATGCTCTTGTGGAACGCCTGAACCGAGCCAGAGCCACGGCTACCAAAAAGTGAGCCTGTATGCTTCTGCCCTGCTCAACTGAGCTGTGCACATTCCTCCAGCAAAAAAGCAACAGAATTTACTTTGAGCTGTGTAAATGACTCCTGGTCGACTGGACGATTTTCACAAAATAAATTCTGCAAAGTGAAGGAAAATGTATTGGGTGGATTCACAGAGAAAAGACAGACAGCAAGAAAACTTGCACGTCAGCaatttgtgttttttctgccTCTGTCAGAGAGCTAAAAGCAGTTCCCATCCTGTGCATCACTGTAAATTGTTAggatatagttcacccaaaaatgattaattcttctgtcgaacacaaggcaatatatttcgaagaaagctgaaCACTTGTAATCACTGAcctccatggtaggaaaaacaaatactatggaagtcagttgttacaacatttcagcttttttttcaaaatatcttcctttgtgttcaacagaagaaataggctcataaaggtttataaccactgaaggttaaattaaatgttcatttttgggtaaattatccCTTAAAAACTCTTTGTACCTATAATTGTATTATGAGCTGATGTGTGTTTGTTGTAGAATCATACTGTAATCGATCATATGCTGTGTTCTGACAAAGTAACacttgttattttaattaaaccacGGTTGGATACAGAAAA
>TCONS_00062375
TTATAGTGAATATTAACATTTGAATGTTTCACTGGGACTGGGAATAGTTTAATACATGCTGCCTGAGTTAAAGTATGTATTCTAAAGCTTTTGACCCCAAATGTACGAATGAATCGAATGGTTTTGGTCTCCATGTTTTACAAATGCACAAGTGTTATGATTTTCTGCAGGTGCTTGTGAGGAGATATTTAAAATTGCCTCAATGGCTCCTGGAGCTTTACTGCTGGAGGCACATAAAGAATATGAGAAAGAGAGTCAGAAGGCAGACGAGTATCTGAGAGAGATTAAAGAGCAGAGTCTGCTGAGCGAAGCGGTACAACAGTGTGTGGAAGCCGCCGGGCATGAACATGAACCCGAGACACAGAAAACACTCTTGAGGGCGGCTTCGTTTGGGAAGTGTTTCTTGAGTAATTTTCCTCCGGAGCAGTTCGTCAGTATGTGCCGAGACCTGCGAGTGTTGAATGCTGTTCGAGATTATACCATAGGCATTCCTCTGACCCACACTCAGTTCAAGCAGATGACCGTACAGGTGCTCATCGACAGATTGGTTTATCGTAAACTCTATCCACTGGCTATTGAGGTTTGCAGATATCTGAAGACTCCGGAATATCAGGGAGTAAGTCGTGTGCTCAAACACTGGGCCTGCTTCAAgGTCCAGCAGAAGGAGGAATCTGATGAAGTCATTGCAAAAGCTGTGAGTGTGAAGCTCGCCGATGCTGCTGGAATCTCCTACTC

Function

symbol description
vps16 Predicted to enable actin binding activity. Predicted to be involved in endosomal transport and vacuole fusion, non-autophagic. Predicted to act upstream of or within intracellular protein transport and vacuole organization. Predicted to be located in early endosome; late endosome membrane; and lysosomal membrane. Predicted to be part of HOPS complex. Predicted to be active in endosome. Human ortholog(s) of this gene implicated in dystonia. Orthologous to human VPS16 (VPS16 core subunit of CORVET and HOPS complexes).

GO:

id name namespace
GO:0006886 intracellular protein transport biological_process
GO:0032889 regulation of vacuole fusion, non-autophagic biological_process
GO:0035542 regulation of SNARE complex assembly biological_process
GO:0016197 endosomal transport biological_process
GO:0007033 vacuole organization biological_process
GO:0015031 protein transport biological_process
GO:0005764 lysosome cellular_component
GO:0005765 lysosomal membrane cellular_component
GO:0005768 endosome cellular_component
GO:0031902 late endosome membrane cellular_component
GO:0033263 CORVET complex cellular_component
GO:0030897 HOPS complex cellular_component
GO:0016020 membrane cellular_component
GO:0005737 cytoplasm cellular_component
GO:0003779 actin binding molecular_function

KEGG:

id description
ko04138 Autophagy - yeast
ko05132 Salmonella infection
ko04131 Membrane trafficking

ZFIN:

id description
ZDB-GENE-050809-9 Predicted to enable actin binding activity. Predicted to be involved in endosomal transport and vacuole fusion, non-autophagic. Predicted to act upstream of or within intracellular protein transport and vacuole organization. Predicted to be located in early endosome; late endosome membrane; and lysosomal membrane. Predicted to be part of HOPS complex. Predicted to be active in endosome. Human ortholog(s) of this gene implicated in dystonia. Orthologous to human VPS16 (VPS16 core subunit of CORVET and HOPS complexes).

Ensembl:

ensembl_id ENSDARG00000059902

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00062374 False 3293 mRNA 0.46 22 9107063 9130843
TCONS_00062375 True 735 lncRNA 0.45 5 9116210 9122999

Neighbor

gene id symbol gene type direction distance location
XLOC_031845 CR954285.2 coding upstream 109067 8705149 ~ 8997996 (+)
XLOC_031846 CR954285.1 coding upstream 335467 8771476 ~ 8771596 (+)
XLOC_031844 CU571254.1 coding upstream 415070 8691408 ~ 8691993 (+)
XLOC_031843 usp40 coding upstream 422993 8652310 ~ 8684070 (+)
XLOC_031842 tspeara coding upstream 456742 8622228 ~ 8650321 (+)
XLOC_031848 rgn coding downstream 146 9130989 ~ 9139986 (+)
XLOC_031849 zgc:64065 coding downstream 11888 9142731 ~ 9150376 (+)
XLOC_031850 zgc:64065 coding downstream 24409 9155252 ~ 9161393 (+)
XLOC_031851 NA coding downstream 32164 9163007 ~ 9173106 (+)
XLOC_031852 si:ch211-207l14.1 coding downstream 45043 9175886 ~ 9187959 (+)
XLOC_031840 NA non-coding upstream 653421 8450311 ~ 8453642 (+)
XLOC_031839 NA non-coding upstream 760122 8339271 ~ 8346941 (+)
XLOC_031857 NA non-coding downstream 406827 9537670 ~ 9539292 (+)
XLOC_031858 NA non-coding downstream 520408 9651251 ~ 9666598 (+)
XLOC_031867 NA non-coding downstream 881418 10012261 ~ 10013022 (+)
XLOC_031868 NA non-coding downstream 893807 10024650 ~ 10036969 (+)

Expression


Co-expression Network