Detailed information of BRAKERXEIP00000028761.1 in Muricea muricata

Genomic Location: chr15:8285464...8288802
NR annotation: CAB4002070.1, E3 ubiquitin- ligase RNF146 [Paramuricea clavata]
Species Muricea muricata · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q7ZUK0E3 ubiquitin-protein ligase rnf146 OS=Danio rerio OX=7955 GN=rnf146 PE=2 SV=1
E1B7X3E3 ubiquitin-protein ligase RNF146-A OS=Bos taurus OX=9913 GN=RNF146A PE=3 SV=1
Q66JE4E3 ubiquitin-protein ligase rnf146 OS=Xenopus tropicalis OX=8364 GN=rnf146 PE=2 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0006731 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF02825
all species →
WWEWWE domainFamilyInterproscan
PF13445
all species →
zf-RING_UBOXRING-type zinc-fingerDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR004170
all species →
DomainWWE domainInterproscan
IPR033509
all species →
FamilyE3 ubiquitin-protein ligase RNF146Interproscan
IPR001841
all species →
DomainZinc finger, RING-typeInterproscan
IPR037197
all species →
Homologous_superfamilyWWE domain superfamilyInterproscan
IPR018123
all species →
DomainWWE domain, subgroupInterproscan
IPR017907
all species →
Conserved_siteZinc finger, RING-type, conserved siteInterproscan
IPR013083
all species →
Homologous_superfamilyZinc finger, RING/FYVE/PHD-typeInterproscan
IPR044110
all species →
DomainRNF146, RING finger, HC subclassInterproscan
IPR027370
all species →
DomainZinc finger, RING-type, eukaryoticInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR13417
all species →
UNCHARACTERIZEDInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0004842
all species →
Molecular Functionubiquitin-protein transferase activityInterproscan
GO:0005634
all species →
Cellular ComponentnucleusInterproscan
GO:0005737
all species →
Cellular ComponentcytoplasmInterproscan
GO:0006511
all species →
Biological Processubiquitin-dependent protein catabolic processInterproscan
GO:0016055
all species →
Biological ProcessWnt signaling pathwayInterproscan
GO:0061630
all species →
Molecular Functionubiquitin protein ligase activityInterproscan
GO:0072572
all species →
Molecular Functionpoly-ADP-D-ribose bindingInterproscan
GO:0008270
all species →
Molecular Functionzinc ion 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
KOEnzymeEnzyme IDPathwayMap IDSource
K15700RNF146; E3 ubiquitin-protein ligase RNF146EC:2.3.2.27
Ubiquitin systemko04121deepkoala

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 Muricea muricata 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 Muricea muricata, 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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