Detailed information of ENSVBPP00000029963.1 in Meandrina meandrites

Genomic Location: chr3:4943651...4954304
NR annotation: XP_020603666.1, synaptobrevin homolog YKT6-like [Orbicella faveolata]
Species Meandrina meandrites · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q7ZUN8Synaptobrevin homolog YKT6 OS=Danio rerio OX=7955 GN=ykt6 PE=2 SV=1
Q9CQW1Synaptobrevin homolog YKT6 OS=Mus musculus OX=10090 GN=Ykt6 PE=1 SV=1
Q3T000Synaptobrevin homolog YKT6 OS=Bos taurus OX=9913 GN=YKT6 PE=2 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0005918 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF13774
all species →
LonginRegulated-SNARE-like domainDomainInterproscan
PF00957
all species →
SynaptobrevinSynaptobrevinFamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR045848
all species →
DomainYKT6, SNARE motifInterproscan
IPR010908
all species →
DomainLongin domainInterproscan
IPR011012
all species →
Homologous_superfamilyLongin-like domain superfamilyInterproscan
IPR042855
all species →
Domainv-SNARE, coiled-coil homology domainInterproscan
IPR001388
all species →
FamilySynaptobrevin-likeInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR45806
all species →
SYNAPTOBREVIN HOMOLOG YKT6Interproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0005484
all species →
Molecular FunctionSNAP receptor activityInterproscan
GO:0005794
all species →
Cellular ComponentGolgi apparatusInterproscan
GO:0006888
all species →
Biological Processendoplasmic reticulum to Golgi vesicle-mediated transportInterproscan
GO:0016020
all species →
Cellular ComponentmembraneInterproscan
GO:0016192
all species →
Biological Processvesicle-mediated transportInterproscan

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
K08516YKT6; synaptobrevin homolog YKT6-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 Meandrina meandrites 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 Meandrina meandrites, 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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