Detailed information of ENSTIFP00000002467.1 in Montipora efflorescens

Genomic Location: BLFP01000522.1:48453...62343
NR annotation: KAJ7336015.1, RNA polymerase II-associated protein 3 [Desmophyllum pertusum]
Species Montipora efflorescens · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q9H6T3RNA polymerase II-associated protein 3 OS=Homo sapiens OX=9606 GN=RPAP3 PE=1 SV=2
Q9D706RNA polymerase II-associated protein 3 OS=Mus musculus OX=10090 GN=Rpap3 PE=1 SV=1
Q68FQ7RNA polymerase II-associated protein 3 OS=Rattus norvegicus OX=10116 GN=Rpap3 PE=1 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0005814 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF13877
all species →		RPAP3_CPotential Monad-binding region of RPAP3DomainInterproscan
PF13414
all species →		TPR_11TPR repeatRepeatInterproscan
PF00515
all species →		TPR_1Tetratricopeptide repeatRepeatInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR025986
all species →		DomainRNA-polymerase II-associated protein 3-like, C-terminal domainInterproscan
IPR051966
all species →		FamilyRNA polymerase II-associated protein 3Interproscan
IPR011990
all species →		Homologous_superfamilyTetratricopeptide-like helical domain superfamilyInterproscan
IPR019734
all species →		RepeatTetratricopeptide repeatInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR46423
all species →		RNA POLYMERASE II-ASSOCIATED PROTEIN 3Interproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0101031
all species →		Cellular Componentprotein folding chaperone complexInterproscan
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
KOEnzymeEnzyme IDPathwayMap IDSource
K23002RPAP3; RNA polymerase II-associated protein 3-Transcription machineryko03021deepkoala

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 Montipora efflorescens 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 Montipora efflorescens, 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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