Detailed information of ENSSYXP00000028368.1 in Micromussa lordhowensis

Genomic Location: chr1:23705563...23713154
NR annotation: XP_027043213.1, LOW QUALITY PROTEIN: E3 ubiquitin-protein ligase RMND5A-like [Pocillopora damicornis]
Species Micromussa lordhowensis · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q640V2E3 ubiquitin-protein ligase RMND5A OS=Xenopus tropicalis OX=8364 GN=rmnd5a PE=2 SV=1
Q9H871E3 ubiquitin-protein transferase RMND5A OS=Homo sapiens OX=9606 GN=RMND5A PE=1 SV=1
Q80YQ8E3 ubiquitin-protein ligase RMND5A OS=Mus musculus OX=10090 GN=Rmnd5a PE=1 SV=2
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0006522 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF13445
all species →
zf-RING_UBOXRING-type zinc-fingerDomainInterproscan
PF10607
all species →
CTLHCTLH/CRA C-terminal to LisH motif domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR027370
all species →
DomainZinc finger, RING-type, eukaryoticInterproscan
IPR013083
all species →
Homologous_superfamilyZinc finger, RING/FYVE/PHD-typeInterproscan
IPR044063
all species →
DomainGid-type RING finger domainInterproscan
IPR006595
all species →
DomainCTLH, C-terminal LisH motifInterproscan
IPR024964
all species →
DomainCTLH/CRA C-terminal to LisH motif domainInterproscan
IPR045098
all species →
FamilyFyv10 familyInterproscan
IPR013144
all species →
DomainCRA domainInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR12170
all species →
MACROPHAGE ERYTHROBLAST ATTACHER-RELATEDInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0061630
all species →
Molecular Functionubiquitin protein ligase activityInterproscan
GO:0004842
all species →
Molecular Functionubiquitin-protein transferase activityInterproscan
GO:0005634
all species →
Cellular ComponentnucleusInterproscan
GO:0005737
all species →
Cellular ComponentcytoplasmInterproscan
GO:0034657
all species →
Cellular ComponentGID complexInterproscan
GO:0043161
all species →
Biological Processproteasome-mediated ubiquitin-dependent protein catabolic processInterproscan

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
K23333RMND5; E3 ubiquitin-protein transferase RMND5EC: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 Micromussa lordhowensis 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 Micromussa lordhowensis, 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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