Detailed information of ENSJQFP00000006804.1 in Rhodactis osculifera

Genomic Location: chr13:391482...477950
NR annotation: no NCBI-NR hit recorded
Species Rhodactis osculifera · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0000767 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF16909
all species →
VPS13_DH-likeVacuolar-sorting-associated 13 protein, DH-like domainFamilyInterproscan
PF09333
all species →
ATG2-VPS13_CATG2/VPS13, C terminal domainDomainInterproscan
PF16908
all species →
VPS13_ext_choreinVacuolar sorting-associated protein 13, extended-choreinRepeatInterproscan
PF06650
all species →
VPS13_VABVacuolar-sorting associated protein 13, adaptor binding domainDomainInterproscan
PF12624
all species →
Chorein_NVPS13-like, N-terminalDomainInterproscan
PF16910
all species →
VPS13_mid_rptVPS13, central RBG modulesRepeatInterproscan
PF21679
all species →
VPS13_CIntermembrane lipid transfer protein VPS13, C-terminalDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR031645
all species →
DomainVacuolar protein sorting-associated protein 13, DH-like domainInterproscan
IPR015412
all species →
DomainAtg2/VPS13, C-terminalInterproscan
IPR031646
all species →
DomainVacuolar protein sorting-associated protein 13, extended choreinInterproscan
IPR009543
all species →
DomainVacuolar protein sorting-associated protein 13, VPS13 adaptor binding domainInterproscan
IPR026854
all species →
DomainVacuolar protein sorting-associated protein 13-like, N-terminal domainInterproscan
IPR031642
all species →
DomainVPS13, middle RBG modulesInterproscan
IPR049424
all species →
DomainIntermembrane lipid transfer protein VPS13, C-terminalInterproscan
IPR002999
all species →
DomainTudor domainInterproscan
IPR026847
all species →
FamilyVacuolar protein sorting-associated protein 13Interproscan

 PANTHER
PANTHER termDescriptionSource
PTHR16166
all species →
VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN VPS13Interproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0006623
all species →
Biological Processprotein targeting to vacuoleInterproscan
GO:0019898
all species →
Cellular Componentextrinsic component of membraneInterproscan
GO:0045053
all species →
Biological Processprotein retention in Golgi apparatusInterproscan

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
KOEnzymeEnzyme IDPathwayMap IDSource
K19525VPS13A_C; vacuolar protein sorting-associated protein 13A/C-Membrane traffickingko04131deepkoala

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

Co-expression network

Genes whose expression across the transcriptome samples of Rhodactis osculifera tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Rhodactis osculifera, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

AnalysisWhat it doesStatus
Primer designDesign PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.template foundopen →
BLASTSearch this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.template foundopen →
Expression heatmapDraw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.no expression matrix
Gene family / orthogroupLook this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.open →
Gene set analysisStart a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.open →
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