Gene detail

Detailed information of ENSKFPP00000001862.1 in Condylactis gigantea

Genomic Location: chr10:3141571...3147643
NR annotation: XP_031563025.1, polycomb group RING finger protein 5-B-like [Actinia tenebrosa]
Species Condylactis gigantea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

ENSKFPT00000002036

TTACGAGCGTGATTAGTTAAGCTTTCATAGGCTAGACAAAATACAACTTTATTACATCCAGAACAAAGAAGTGTTTAAATATTTGGGggggaaaatggaaaaaaattcaaggcattgatttttttcacgAAAGAAGCCTAGTCCTTCTCGGTAAGATTAGCCCCTAGTCCACCTCGTTCATATTGTAGTGATCTGATTATCAGCCGTGTGTTGCTTTTACAAATGGACATGAATTTCTATTAAAAAACTAAAcaattttcaaccttttgaacCCCAAGACAGAACATCTTGCTTATAAAATGGCAATCCTACAGtctaacagacaaagaaaactATATGCTGGTGACCTGAACCCTTTACTGACCTGTGGGTTGTGTAGAGGGTACATGATCAAGCCGACATGCATCACAGAGTGTCTGCATACGTtttgtAGAAGCTGCATCGTAAAGCACTTACAAAAAGAGATGAATGAGTGTCCAACATGTGCTATTGTTATCCACGAGACTAACCCCTTGGAAATGCTAAGGGCTGATCAGATGCTCGAGGATGTAATTTATAAATTAATACCAGGGCTACAACAAGatGAGGAACATCGAGAACAAGAatttaacaaaagaatgaagaaattaAAGGAAGAATCATCAAATTGTGAAAAGATGCAAAACGATAACCAAGTCAGAACATCCTTAGCAGAAGATACAAGATACCAACCAAAAGTAAACTACAACAATTATCATCGTGATGAACCACAGATCTGTGTTTCCCTGGAATGCTGTGGTGATTCAGATTCAGACGTACCCGTTAAGCAGCTCGCAAGACGATACATCTGCTGTTCGTCACAGATGACGATAGCACACGTGAAAAAGTACCTCAAGTTAAAACTGAACCTCAAGGCAGCTGAACAGGTTGAGGTGCTGTGCAATGGAGAAATCATGGGCAAAGACCACACACTCGAATTTGTTTATATGACACGATGGAGAGTAAAAGAAGGATCGCTGATGAGCCTGCAGTACCGACCGCGGACCGACTTCCtgtgaaaaagagaaaatacgCGAATAGCCTTcaaggaaaacaatttttattgTCTATATAAAATGATAGAAGTTCTTATCGATAATGAGAAGAGAGCATTGATATAATGATATAGAAACGCATTTTAGAAATACAGAGTGGATAAAGATACTCCTTGTGGGGACTTACCAGACGAAATAAACTTTGACTTCCGACGTCCACATGGAAATAGCAAACCCGGAAGAACTTGTTACTGAAAAACTACGCAAGCGGAAGTGGTTCTTTGAACGATAGGCGTTTTCGAACACTTTTATTCAGCAAACTATTGACCTTTTACgtaattttaagattttactATTGAAAGTCATCGCAACAACAGGTCGTACGAATTTTAACAAACTGAATTTCTAAGAGAGACCACGTGACTGGTTGTTTGCACGTGATCTGTTTTTAGTACCGTTTTGTAGCTGTCACGTGACGCCAtatagccgccatcttggatggtTTGCTTTAATTTATTCTTACTAGGTCATGTGAAGTCTTTTTACTTGTTTGTCCTAGAGTTTCCTATCTACACGCATAAGTAAAGTGTATTATtgagaaataaatattattgtcacatgaatttttttttccactggGGTTTAACCGTGTCATCATTTATTGTACTGGACTTCAAAGCTTTATGCAATGTTTTGCCTTTAAGATGAATCATCCTTTCTTTAAGAAGTATCCCTCCGCTATTATTCCAACTTAGAGAAGTTCTGGTGAAGACCCTGTATGCATAGGATTGAGGGGTTGGAATTCCTTCCCACAATCCTATGCAGGATATTTTGCTACCAGTCTTTACCGCTAAAAAGATTTGTCTGCTACATAACTAAGAAGGAAATAATACTAAAGAGTTTGAGATAATATGGGACAAATTACCCGTTTCTGTGAGCACTGAGCCCCTTTGCCGCATAAACTTTTGACGTATACGTCTCTTAGTACCATCTTTCTTTATATTGTTCTTTCTTGCTGCATTT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
B3DK16	Polycomb group RING finger protein 5-A OS=Danio rerio OX=7955 GN=pcgf5a PE=2 SV=1
Q86SE9	Polycomb group RING finger protein 5 OS=Homo sapiens OX=9606 GN=PCGF5 PE=1 SV=1
Q3UK78	Polycomb group RING finger protein 5 OS=Mus musculus OX=10090 GN=Pcgf5 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000417 (this species only) · gene tree & orthology
Ubiquitin family	ULD\|UFD\|RAWUL · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00097 all species →	zf-C3HC4	Zinc finger, C3HC4 type (RING finger)	Domain	Interproscan
PF16207 all species →	RAWUL	RAWUL domain RING finger- and WD40-associated ubiquitin-like	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001841 all species →	Domain	Zinc finger, RING-type	Interproscan
IPR018957 all species →	Domain	Zinc finger, C3HC4 RING-type	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR051507 all species →	Family	Polycomb group RING finger	Interproscan
IPR032443 all species →	Domain	RAWUL domain	Interproscan
IPR017907 all species →	Conserved_site	Zinc finger, RING-type, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45893 all species →	POLYCOMB GROUP RING FINGER PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0046872 all species →	Molecular Function	metal ion binding	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0035102 all species →	Cellular Component	PRC1 complex	Interproscan
GO:0036353 all species →	Biological Process	obsolete histone H2A-K119 monoubiquitination	Interproscan

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 ENSKFPP00000001862.1.

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 Condylactis gigantea 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 Condylactis gigantea, 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.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search 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 found	open →
Expression heatmap	Draw 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 / orthogroup	Look 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 analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →