Detailed information of ENSOJPP00000023638.1 in Anthopleura xanthogrammica

Genomic Location: chr7:11845851...11851798
NR annotation: XP_031575075.1, DNA-directed RNA polymerases I and III subunit RPAC1-like [Actinia tenebrosa]
Species Anthopleura xanthogrammica · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
O15160DNA-directed RNA polymerases I and III subunit RPAC1 OS=Homo sapiens OX=9606 GN=POLR1C PE=1 SV=1
Q32L22DNA-directed RNA polymerases I and III subunit RPAC1 OS=Bos taurus OX=9913 GN=POLR1C PE=2 SV=1
P52432DNA-directed RNA polymerases I and III subunit RPAC1 OS=Mus musculus OX=10090 GN=Polr1c PE=1 SV=3
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0004554 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF01193
all species →		RNA_pol_LRNA polymerase Rpb3/Rpb11 dimerisation domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR050518
all species →		FamilyArchaeal Rpo3/Eukaryotic RPB3 RNA Polymerase SubunitInterproscan
IPR011263
all species →		DomainDNA-directed RNA polymerase, RpoA/D/Rpb3-typeInterproscan
IPR036643
all species →		Homologous_superfamilyDNA-directed RNA polymerase, insert domain superfamilyInterproscan
IPR001514
all species →		Conserved_siteDNA-directed RNA polymerase, 30-40kDa subunit, conserved siteInterproscan
IPR036603
all species →		Homologous_superfamilyRNA polymerase, RBP11-like subunitInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR11800
all species →		DNA-DIRECTED RNA POLYMERASEInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0001054
all species →		Molecular FunctionRNA polymerase I activityInterproscan
GO:0001056
all species →		Molecular FunctionRNA polymerase III activityInterproscan
GO:0003899
all species →		Molecular FunctionDNA-directed 5'-3' RNA polymerase activityInterproscan
GO:0005666
all species →		Cellular ComponentRNA polymerase III complexInterproscan
GO:0005736
all species →		Cellular ComponentRNA polymerase I complexInterproscan
GO:0006351
all species →		Biological ProcessDNA-templated transcriptionInterproscan
GO:0003677
all species →		Molecular FunctionDNA bindingInterproscan
GO:0046983
all species →		Molecular Functionprotein dimerization activityInterproscan

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 ENSOJPP00000023638.1.

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 Anthopleura xanthogrammica 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 Anthopleura xanthogrammica, 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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