Detailed information of ENSOFVP00000021824.1 in Cyphastrea salae

Genomic Location: chr3:26123329...26126595
NR annotation: XP_020623733.1, ubiquitin domain-containing protein 2-like [Orbicella faveolata]
Species Cyphastrea salae · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q640W6Ubiquitin domain-containing protein 1 OS=Xenopus laevis OX=8355 GN=ubtd1 PE=2 SV=1
Q5EAE3Ubiquitin domain-containing protein 2 OS=Bos taurus OX=9913 GN=UBTD2 PE=2 SV=1
Q8WUN7Ubiquitin domain-containing protein 2 OS=Homo sapiens OX=9606 GN=UBTD2 PE=1 SV=2
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0008889 (this species only) · gene tree & orthology
Ubiquitin familyULD|UFD/UBQ|UBQ_Other · all ubiquitin genes in this species
Ubiquitin familyULD|UFD/UBQ|UBQ_PIM · all ubiquitin genes in this species

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF00240
all species →		ubiquitinUbiquitin familyDomainInterproscan
PF16455
all species →		UBDUbiquitin-binding domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR039869
all species →		FamilyUbiquitin domain-containing protein 1/2Interproscan
IPR029071
all species →		Homologous_superfamilyUbiquitin-like domain superfamilyInterproscan
IPR000626
all species →		DomainUbiquitin-like domainInterproscan
IPR038169
all species →		Homologous_superfamilyDC-UbP/UBTD2, N-terminal domain superfamilyInterproscan
IPR032752
all species →		DomainDC-UbP/UBTD2, N-terminal domainInterproscan
IPR019956
all species →		DomainUbiquitin domainInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR13609
all species →		UBIQUITIN DOMAIN CONTAINING 1 PROTEIN-RELATEDInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0005515
all species →		Molecular Functionprotein bindingInterproscan

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
No KEGG orthology assignment for ENSOFVP00000021824.1.

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 Cyphastrea salae 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 Cyphastrea salae, 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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