Gene detail

Detailed information of gene12149.t1 in Actinoscyphia liui

Genomic Location: chr3:45687817...45708271
NR annotation: XP_020900674.1, vam6/Vps39-like protein [Exaiptasia diaphana]
Species abbreviation ALIUI · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

gene12149.t1

ATGCACGATGCATTCGAACATGTACCCATCTTGGAGAAGCTTCCTTTGCAGATTGAATGCATCGCAACTTACGGTGACTACCTTTTAGTGGGAACAAGACAGGGCCACTTGTTGTTGTATTCAGTGAAAGATGGATCAGGTGAAAACAGATTCAAAGTTGATCTTCGTAGTTCAAATAAACTTTTCTCTAAGAAACCAATCCTCCAGTTAGCTGTTGTTGAAGAGCTTAACTTGTTAATAAGTTTATCAGACTCTGTTGTTAGCTGTCATCTTCTGGATACCTTTGCTATTGTTTCTTCTCTTTCCAAGACAAAAGGAGCAACATTTTTTGCTGTGGACTTAATAACCAGGAAAGCATCATCAGTGTTTGATCCATCTCCACCATTTGAATTAAAGCTTTGTGTTGCTGTTAAGAAGAAAATCCAGCTGTACACCTGGCAAAATGGGGAATTCCAGGAAATCCCTCCAGAGATGGGCCTTCCTGATATCGTCAGAGCTGTGGCCTGGGCTGGTGAAAGCCTTTGTGTTGGGTTTAAAAGAGAATACTCTATTATAAAGGTCAACAGTGGAAGTGCCACTGACTTGTTTTCTACTGGTAAGCATCTGGAACCCACCATTGCTAAGTTACCAGATGGTGGTCTGATTCTGTGCCGAGATGATATGAGTATTATCACAGACAGTTCAGGAAAGCACACTTCAAAGCAGTCTATCACATGGTCAGATACACCAATCGCTATTCAATATGTAGAACCATATATCATTGGTGTACTTCCAAGATATGCAGAAGTACGCACAATAAATCCAAGGGCTTTAATACAGAGTATAGAGCTCCAAAAACCACGCTATATAGCCAAAGGAAAACATGTGTACATTGCATCAACTTCTCATGTCTGGCAGCTTGTCCCTGTGTCTATTCCAATGCAGATACAACAGCTATTACAGGCTAAGGAATTTAATTTAGCTCTCATGCTTGCAGAATTGGTGGAAGAACCAGAAGCTGAGAAAGCAAGAAGATCAGAACACATACAGAATTTATACGCATTTGAATTATTTTGTCAAAAGAGATTTGATGAATCATTACAGCTGTTTGCTAGATTACAAACAGATCCAACACAAGTTATAGGATTATTTCCCAATCTTCTCCCTCCTGAGTTTTGTAATCAGTTAGAGTATCCAGATTATAAACCTGATTTAAAACCAAGTGAGATTGAGAAGGGTTATGTTGCCTTGATTGAATACTTAACTCAGAAACGCAATGAGCTTATTAAAGCTGCGGATAAGTTTGACGAAAACAAAAAGAAAAAGGAAGTGGAAGTGGAAGAGAAGCCAAGTGAAGCTGAGATTAGAGCACAGAAAAACTTAAGACAACGACAGCAAATCATTGACACAACGCTGTTAAAGTGTTACTTACAGACAAATGATGCCTTGGTTGCCTCACTTTTACGATTAAAAGACAACAGTTGCCATGTCGAGGAGAGTGAAAGAGTTTTGATGCAGCATAAGAAATATAAAGAATTAGTAGTCTTGTATCAAACTAAGGGGCTTAACAAAAAAGCCCTAGATTTATTGTTACGACAAGCACAGAAGGCCAGTGGACCTCTAAAGGGTCATCAAAAGACAGTCCAGTATCTACAACGACTTGGTCGTGATCATTTAAAGCTTATTTTCGATTTCTCAGTATGGGTATTAAAGGCTCATCCTGATGACGGCCTTAAGATTTTTACAGAAGATTTACCAGAAGTAGAAAGCTTACCACGTGACCAGGTCTTGGAACATATTGAACAGAATGCCAAGAGCTTGGTGATTAGATATTTGGAACACGTTATTTTTATATGGTTTGAAACGAACCCAAAGTTTCACAACAAGTTAATCAACTGTTATCGAGAAAAGGTTCAGATTCTAATGAAGGAATATTTAGACTCGCTACCTGAAGGCGATAAACCTTTCCCTCCAGGCAGCGAGCCCGATGAACTGGGTGAATTACGAGGACGTCTTCTGTTTCTTCTGGAAACCTCCAAGTACTACCAGGCAGAAACCTTGCTGACACATTTCCAGGAATCGTTTTACCACGAGCGAGCTTTGTTGCTGGGACGTGTGGGACGTCACGAAGAGGCTCTTGCCATCTACATTCACATACTTAAGGATCCTAAACTAGCTGAAGAATATTGTCAGCGGACGTACTATGAAGAACGCGAGGGAAGCAGTGAAGTCTATGTGTCGCTACTGCGCATGTACCTTGAGCCTCCAGATATTAAGGATCTAACAGTGAAGACCAACATCCCAGCAGCACTGAATGTTCTTAAGGAACATCACCAGAAGATAAGCACTGCTAAGGCCTTGGAGCTACTCCCGTCAAACATTGAAGTTCGTGAAGTGTATGACTTCCTAATGGACGTGCTGGAAGGGAAAGAAATGAAGAGAAAACGAAGTCAAGTTCTTCGTAGCTTGCTGTTTGCAGAACACTTGCAGGCCCAGGAACAACGAATGTTTTATCAAGGACGCAAAATTGTGCTTACGGAGGAGAGGGTGTGTCGAGAATGTCACAAGCGAATAGGAAACAGTGCCTTCGCGTACTATCCAAATGGTGAGATCAAGCACTTCTATTGCTACAAGGACCCCAATACATCGTCAGAACAAGACATACCTTCCACCAATGACCAAACATTTAATAGATAA

Transcript

gene12149.t1

TGCTTTTGGTTGCTTTTGGTGGTTTTACTCTTGAAGAAAGTAGGTTTTGCACAAAAATGCTGAGATCCCATACAGAGGCGACTCTCCTATAAAAATGCACGATGCATTCGAACATGTACCCATCTTGGAGAAGCTTCCTTTGCAGATTGAATGCATCGCAACTTACGGTGACTACCTTTTAGTGGGAACAAGACAGGGCCACTTGTTGTTGTATTCAGTGAAAGATGGATCAGGTGAAAACAGATTCAAAGTTGATCTTCGTAGTTCAAATAAACTTTTCTCTAAGAAACCAATCCTCCAGTTAGCTGTTGTTGAAGAGCTTAACTTGTTAATAAGTTTATCAGACTCTGTTGTTAGCTGTCATCTTCTGGATACCTTTGCTATTGTTTCTTCTCTTTCCAAGACAAAAGGAGCAACATTTTTTGCTGTGGACTTAATAACCAGGAAAGCATCATCAGTGTTTGATCCATCTCCACCATTTGAATTAAAGCTTTGTGTTGCTGTTAAGAAGAAAATCCAGCTGTACACCTGGCAAAATGGGGAATTCCAGGAAATCCCTCCAGAGATGGGCCTTCCTGATATCGTCAGAGCTGTGGCCTGGGCTGGTGAAAGCCTTTGTGTTGGGTTTAAAAGAGAATACTCTATTATAAAGGTCAACAGTGGAAGTGCCACTGACTTGTTTTCTACTGGTAAGCATCTGGAACCCACCATTGCTAAGTTACCAGATGGTGGTCTGATTCTGTGCCGAGATGATATGAGTATTATCACAGACAGTTCAGGAAAGCACACTTCAAAGCAGTCTATCACATGGTCAGATACACCAATCGCTATTCAATATGTAGAACCATATATCATTGGTGTACTTCCAAGATATGCAGAAGTACGCACAATAAATCCAAGGGCTTTAATACAGAGTATAGAGCTCCAAAAACCACGCTATATAGCCAAAGGAAAACATGTGTACATTGCATCAACTTCTCATGTCTGGCAGCTTGTCCCTGTGTCTATTCCAATGCAGATACAACAGCTATTACAGGCTAAGGAATTTAATTTAGCTCTCATGCTTGCAGAATTGGTGGAAGAACCAGAAGCTGAGAAAGCAAGAAGATCAGAACACATACAGAATTTATACGCATTTGAATTATTTTGTCAAAAGAGATTTGATGAATCATTACAGCTGTTTGCTAGATTACAAACAGATCCAACACAAGTTATAGGATTATTTCCCAATCTTCTCCCTCCTGAGTTTTGTAATCAGTTAGAGTATCCAGATTATAAACCTGATTTAAAACCAAGTGAGATTGAGAAGGGTTATGTTGCCTTGATTGAATACTTAACTCAGAAACGCAATGAGCTTATTAAAGCTGCGGATAAGTTTGACGAAAACAAAAAGAAAAAGGAAGTGGAAGTGGAAGAGAAGCCAAGTGAAGCTGAGATTAGAGCACAGAAAAACTTAAGACAACGACAGCAAATCATTGACACAACGCTGTTAAAGTGTTACTTACAGACAAATGATGCCTTGGTTGCCTCACTTTTACGATTAAAAGACAACAGTTGCCATGTCGAGGAGAGTGAAAGAGTTTTGATGCAGCATAAGAAATATAAAGAATTAGTAGTCTTGTATCAAACTAAGGGGCTTAACAAAAAAGCCCTAGATTTATTGTTACGACAAGCACAGAAGGCCAGTGGACCTCTAAAGGGTCATCAAAAGACAGTCCAGTATCTACAACGACTTGGTCGTGATCATTTAAAGCTTATTTTCGATTTCTCAGTATGGGTATTAAAGGCTCATCCTGATGACGGCCTTAAGATTTTTACAGAAGATTTACCAGAAGTAGAAAGCTTACCACGTGACCAGGTCTTGGAACATATTGAACAGAATGCCAAGAGCTTGGTGATTAGATATTTGGAACACGTTATTTTTATATGGTTTGAAACGAACCCAAAGTTTCACAACAAGTTAATCAACTGTTATCGAGAAAAGGTTCAGATTCTAATGAAGGAATATTTAGACTCGCTACCTGAAGGCGATAAACCTTTCCCTCCAGGCAGCGAGCCCGATGAACTGGGTGAATTACGAGGACGTCTTCTGTTTCTTCTGGAAACCTCCAAGTACTACCAGGCAGAAACCTTGCTGACACATTTCCAGGAATCGTTTTACCACGAGCGAGCTTTGTTGCTGGGACGTGTGGGACGTCACGAAGAGGCTCTTGCCATCTACATTCACATACTTAAGGATCCTAAACTAGCTGAAGAATATTGTCAGCGGACGTACTATGAAGAACGCGAGGGAAGCAGTGAAGTCTATGTGTCGCTACTGCGCATGTACCTTGAGCCTCCAGATATTAAGGATCTAACAGTGAAGACCAACATCCCAGCAGCACTGAATGTTCTTAAGGAACATCACCAGAAGATAAGCACTGCTAAGGCCTTGGAGCTACTCCCGTCAAACATTGAAGTTCGTGAAGTGTATGACTTCCTAATGGACGTGCTGGAAGGGAAAGAAATGAAGAGAAAACGAAGTCAAGTTCTTCGTAGCTTGCTGTTTGCAGAACACTTGCAGGCCCAGGAACAACGAATGTTTTATCAAGGACGCAAAATTGTGCTTACGGAGGAGAGGGTGTGTCGAGAATGTCACAAGCGAATAGGAAACAGTGCCTTCGCGTACTATCCAAATGGTGAGATCAAGCACTTCTATTGCTACAAGGACCCCAATACATCGTCAGAACAAGACATACCTTCCACCAATGACCAAACATTTAATAGATAACAAATATTCAAACGAATCACCCCTCCCTTGATAGATCGTACAGTAGTACCCAGACCCCTCTCCCAAATCACGATGCTCGTGTGAAAGGCCTGGTCACTAGAAGGCCGAAGGGCTCTGGACTGACACTACAATGAACCCGGTGCTGAGGTTTGAGACAGATATCATACAAGGTGGTCTTGGGTTTTGCGTGTGTCAAGACCGAAGTACATTCTGGATCGTAGAGATTGAGGTTAAAAAAGCATTCAGGAAAAACGGAGCGAAAAGTTATTTGCTTTTTGGACGCTCAGGGTCCATTTTGTTGCTCACAAACACAATTTCACACAGTACCCAGAATGCACTACGGTCAATTCCCAAAGACAACCTGTTTTGAACTAGCTGTATACAGGCATTCGTTCATCCACATACTCAATATTGAAGCAATGCAGAGACAATAAGAAAGGCATTTAAGGATTTAGGTACGATGTTTTCTTACACTAGTTATAGTATTTTCAAATTATAATTATGAAATGATAACAAAATTTTAGAATAAAAAAATAAGCGTGTTTCACACTAGTGACATAACGACAAAAACATGACATGAGACATAAAGAGTAACGAGAAGCATGTCATTTTGTCGGCAGTGTGAACAAGCGAACATAACGACAGTAGAGCAGATTTCGTTTGGGTGGGAAGTGGTTACGGTAC

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q96JC1	Vam6/Vps39-like protein OS=Homo sapiens OX=9606 GN=VPS39 PE=1 SV=2
Q8R5L3	Vam6/Vps39-like protein OS=Mus musculus OX=10090 GN=Vps39 PE=1 SV=1
Q9VEA2	Vacuolar protein sorting-associated protein 39 homolog OS=Drosophila melanogaster OX=7227 GN=Vps39 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005043 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF10366 all species →	Vps39_1	Vacuolar sorting protein 39 domain 1	Repeat	Interproscan
PF10367 all species →	Vps39_2	Vacuolar sorting protein 39 domain 2	Domain	Interproscan
PF00780 all species →	CNH	CNH domain	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR032914 all species →	Family	Vam6/VPS39/TRAP1 family	Interproscan
IPR001180 all species →	Domain	Citron homology (CNH) domain	Interproscan
IPR019452 all species →	Domain	Vacuolar sorting protein 39/Transforming growth factor beta receptor-associated domain 1	Interproscan
IPR019453 all species →	Domain	Vacuolar sorting protein 39/Transforming growth factor beta receptor-associated domain 2	Interproscan
IPR000547 all species →	Repeat	Clathrin, heavy chain/VPS, 7-fold repeat	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12894 all species →	CNH DOMAIN CONTAINING	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006914 all species →	Biological Process	autophagy	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0016192 all species →	Biological Process	vesicle-mediated transport	Interproscan
GO:0034058 all species →	Biological Process	endosomal vesicle fusion	Interproscan
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K20183	VPS39, VAM6; Vam6/Vps39-like protein vacuolar protein sorting-associated protein 39	-	Membrane trafficking	ko04131	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.