Detailed information of Ppa0G198130 in Paragorgia papillata

Genomic Location: Contig00299:452203...463080
NR annotation: XP_028406059.1, proteasomal ubiquitin receptor ADRM1-B-like [Dendronephthya gigantea]
Species Paragorgia papillata · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q6NZ09Proteasomal ubiquitin receptor ADRM1 OS=Danio rerio OX=7955 GN=adrm1b PE=1 SV=1
Q98SH3Proteasomal ubiquitin receptor ADRM1 OS=Gallus gallus OX=9031 GN=ADRM1 PE=2 SV=1
Q6GN67Proteasomal ubiquitin receptor ADRM1-A OS=Xenopus laevis OX=8355 GN=adrm1-a PE=2 SV=2
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0007210 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF04683
all species →
Rpn13_ADRM1_PruProteasome complex subunit Rpn13, Pru domainDomainInterproscan
PF16550
all species →
RPN13_CUCH-binding domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR044868
all species →
DomainRpn13/ADRM1, Pru domainInterproscan
IPR032368
all species →
DomainRPN13, DEUBAD domainInterproscan
IPR038633
all species →
Homologous_superfamilyProteasomal ubiquitin receptor Rpn13/ADRM1, Pru domain superfamilyInterproscan
IPR038108
all species →
Homologous_superfamilyRPN13, DEUBAD domain superfamilyInterproscan
IPR006773
all species →
FamilyProteasomal ubiquitin receptor Rpn13/ADRM1Interproscan
IPR044867
all species →
DomainDEUBAD domainInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR12225
all species →
ADHESION REGULATING MOLECULE 1 110 KDA CELL MEMBRANE GLYCOPROTEINInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0005634
all species →
Cellular ComponentnucleusInterproscan
GO:0005737
all species →
Cellular ComponentcytoplasmInterproscan
GO:0008541
all species →
Cellular Componentproteasome regulatory particle, lid subcomplexInterproscan
GO:0061133
all species →
Molecular Functionendopeptidase activator activityInterproscan
GO:0070628
all species →
Molecular Functionproteasome 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
K06691RPN13; 26S proteasome regulatory subunit N13-Proteasomeko03051deepkoala

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 Paragorgia papillata 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 Paragorgia papillata, 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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