Gene detail

Detailed information of ENSOJPP00000005375.1 in Anthopleura xanthogrammica

Genomic Location: chr8:9458984...9465721
NR annotation: XP_031572693.1, transcription initiation factor TFIID subunit 3-like [Actinia tenebrosa]
Species Anthopleura xanthogrammica · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSOJPT00000006202

ATGAGTGATGAATTGAATAACGGAGCTCTTCGCTTGGCAGTTGCTCAGATATGTCAGTCGATGGGATGGGATGCTCTGCATAAATCAACTCATGACTTGCTTACAGATGTACTACAAAGATACATGCAAGAGATTGCTAAATGTGCTCATGGTTACTCACAGCTTTATTGCCATGCTGAACCGAACTTGGAAGATTTGGGGCTTGCTTTTAACGATACAGGGGTGCTTGTACATGAGTTGGAGGACTTTGTGACCCAGGTAGACCAAGTACCCTTTAGTTATCAGTTGCCACGGTTTCCAATGCCAAAGCCTAACGTTCTTCATCACCCACATAAAGAAGAGATAGTAGATCGGCCTGAGTTCTATCATGAGCACTTGCCACCCCTCATCAAAGCCTTACAACAAAATGAAGATGAAGGAGAAAGAGATGCAGCTGAAATCCAAGGCTTAGAGAACTCCACAGATTCCACAAAACCATTTCTTAgaagtgaaataaaaactgTTGGTCAAGAAACAGAAAACGAGTTAACCGAAAATGGAGCAGATAAAAGAACTGCTAACTCCTCTGTGGAATTTGAAACTGAAGCAAAGAGGAGAAGACTAGAAAGTCCATTCAACaagcaaaataaagaaaataaacttgATATCCTTCAAGTGTTACAAGAAAAGAattcacagtcacagtcacctTCGCCATCTCCAGATTTTGTACCAATTGACCCAGATGgtaaaaggaatgaaaatacTGTGTTCACATTCACGTCAACACCAACTCCCTCATCACCTAAAACTGTTAGCACCACTAAGAAAAAAGCTAGCAAAAAGACTGAAAATACTTCAAAAGATAAGCTATTGCTTGGGTCACCAGGACTGCTAGATAAAAAGCATTCTCAAGGAACATCTGGGGTAAAAAACTCTCCCAAGAAAACACCTGCAAAATCAAAGTCGAAACCAAAACCTACTGCATCACCAGTGAAAGGGAAAAATGTTTCACCTAAAAAGCCACCAGCAAAGCCTTCTCCTAAAAAGAAGTCAAAGGCAAAAGAAACATCTCAAAAGTCAGCGGCAGCCACATCCAAAAAGCCGTCTCcagcaagcaagaaaaaatCTAAGCCAGTGGTAAAAAAGGAAGTACCTTTTTCACCACCTCTGCCTCTTCCTGTCTTACCACATAAGGAAGAAGCTAAGGAAGCAAGAATAATTACTCAACCCATGCCAAAGTTAATAATCAAACCactaaaacatgaaaaaaatcagcTTTCAGAATATTCAGTGTCAGAAATGCCTTTAGAAGCTACTACGTTGGAttcaggaaagaaaaaaggagttAAAAGAAAGGCAACAACTGAGAAAGGCACCTTGGGGGAGAATGAACCGAAaccaaaaaagaagaaaaagaagaaagtatCACAGGGAATTATAGACCGCACTGCTCTGGAGTCCCAACCTCCAGGAGGTTTTCCAGCAGCTGTAGAATCCAAACTTCCAGGTAGTTTTCCGGCAGCATCAGTTAGCTCAACCCAGATGTTAAGCGAAGTACAAAGTGCAAAGAAGGTTGGGGACACtatcaagaagaagaaaaagaagcacAAGGAGAAGGATAGGGATAAAACCAAACAGAAAAAGGTCAAAGAAGCAACTAGTGAGTTTAGCATATCTTCTTCATCTGCAACACCTATTCCAACTATCAAGCTAAAACTAGAGAATCCGTCATCTACAAGTACCATCTCTACTGACGCAGGCTCAAAGCTCAGTGAAATAACAGTGAGCAAGAAATCTCATTCCCTACCTTTTCAAACTGTGCCTTCCAAACCAGTGGACCCCCAACCAGTGCCTCTTACCATAAAACAGGAGAAATTTGATGATACAGTACCAACTAGTAGTGCCGCTACTGGACAGTTGTTAACAAAAACCAAAGAAGGTGTACCTAGAACAGTTATCACAGAAACTCTTTCAACCACTGTGCAACTCTATTACTGCCCTGCCTGCGGACTAGCTGATGATGGGAGTTTTATGATTGGATGTGATTCCTGTGATAGCTGGTATCATGGGGCATGTGTTGGTATCAACGATGATCCTGGAGGAAACTGGTACTGTGAAGTGTGTActgcaaagaaaacaaaaaagaagaagaaaaagaaaagcaaggATAAAGACAAGCATAATTAA

Transcript

ENSOJPT00000006202

ACCTTTGtggtccgccattttgaaaacatttgatcATTGCTATCGACTTCTTCAACTGTTTTAAccccaaaaatatattcttaagACATGCTTTCTTCTTAACGTTTATGTGAAAACGTTTCTCGATAGTAACCATGAGTGATGAATTGAATAACGGAGCTCTTCGCTTGGCAGTTGCTCAGATATGTCAGTCGATGGGATGGGATGCTCTGCATAAATCAACTCATGACTTGCTTACAGATGTACTACAAAGATACATGCAAGAGATTGCTAAATGTGCTCATGGTTACTCACAGCTTTATTGCCATGCTGAACCGAACTTGGAAGATTTGGGGCTTGCTTTTAACGATACAGGGGTGCTTGTACATGAGTTGGAGGACTTTGTGACCCAGGTAGACCAAGTACCCTTTAGTTATCAGTTGCCACGGTTTCCAATGCCAAAGCCTAACGTTCTTCATCACCCACATAAAGAAGAGATAGTAGATCGGCCTGAGTTCTATCATGAGCACTTGCCACCCCTCATCAAAGCCTTACAACAAAATGAAGATGAAGGAGAAAGAGATGCAGCTGAAATCCAAGGCTTAGAGAACTCCACAGATTCCACAAAACCATTTCTTAgaagtgaaataaaaactgTTGGTCAAGAAACAGAAAACGAGTTAACCGAAAATGGAGCAGATAAAAGAACTGCTAACTCCTCTGTGGAATTTGAAACTGAAGCAAAGAGGAGAAGACTAGAAAGTCCATTCAACaagcaaaataaagaaaataaacttgATATCCTTCAAGTGTTACAAGAAAAGAattcacagtcacagtcacctTCGCCATCTCCAGATTTTGTACCAATTGACCCAGATGgtaaaaggaatgaaaatacTGTGTTCACATTCACGTCAACACCAACTCCCTCATCACCTAAAACTGTTAGCACCACTAAGAAAAAAGCTAGCAAAAAGACTGAAAATACTTCAAAAGATAAGCTATTGCTTGGGTCACCAGGACTGCTAGATAAAAAGCATTCTCAAGGAACATCTGGGGTAAAAAACTCTCCCAAGAAAACACCTGCAAAATCAAAGTCGAAACCAAAACCTACTGCATCACCAGTGAAAGGGAAAAATGTTTCACCTAAAAAGCCACCAGCAAAGCCTTCTCCTAAAAAGAAGTCAAAGGCAAAAGAAACATCTCAAAAGTCAGCGGCAGCCACATCCAAAAAGCCGTCTCcagcaagcaagaaaaaatCTAAGCCAGTGGTAAAAAAGGAAGTACCTTTTTCACCACCTCTGCCTCTTCCTGTCTTACCACATAAGGAAGAAGCTAAGGAAGCAAGAATAATTACTCAACCCATGCCAAAGTTAATAATCAAACCactaaaacatgaaaaaaatcagcTTTCAGAATATTCAGTGTCAGAAATGCCTTTAGAAGCTACTACGTTGGAttcaggaaagaaaaaaggagttAAAAGAAAGGCAACAACTGAGAAAGGCACCTTGGGGGAGAATGAACCGAAaccaaaaaagaagaaaaagaagaaagtatCACAGGGAATTATAGACCGCACTGCTCTGGAGTCCCAACCTCCAGGAGGTTTTCCAGCAGCTGTAGAATCCAAACTTCCAGGTAGTTTTCCGGCAGCATCAGTTAGCTCAACCCAGATGTTAAGCGAAGTACAAAGTGCAAAGAAGGTTGGGGACACtatcaagaagaagaaaaagaagcacAAGGAGAAGGATAGGGATAAAACCAAACAGAAAAAGGTCAAAGAAGCAACTAGTGAGTTTAGCATATCTTCTTCATCTGCAACACCTATTCCAACTATCAAGCTAAAACTAGAGAATCCGTCATCTACAAGTACCATCTCTACTGACGCAGGCTCAAAGCTCAGTGAAATAACAGTGAGCAAGAAATCTCATTCCCTACCTTTTCAAACTGTGCCTTCCAAACCAGTGGACCCCCAACCAGTGCCTCTTACCATAAAACAGGAGAAATTTGATGATACAGTACCAACTAGTAGTGCCGCTACTGGACAGTTGTTAACAAAAACCAAAGAAGGTGTACCTAGAACAGTTATCACAGAAACTCTTTCAACCACTGTGCAACTCTATTACTGCCCTGCCTGCGGACTAGCTGATGATGGGAGTTTTATGATTGGATGTGATTCCTGTGATAGCTGGTATCATGGGGCATGTGTTGGTATCAACGATGATCCTGGAGGAAACTGGTACTGTGAAGTGTGTActgcaaagaaaacaaaaaagaagaagaaaaagaaaagcaaggATAAAGACAAGCATAATTAATCTTGGAACTCCAAATAAAGACATATTATGTCTTTTCTAAAATGTATAGTTCAAATAGacatttttaatttaagaTATGGGGTGTGGCTGTGTTGTCCCTGGTAGGATAAAGCAGCTGTAGTATGATATAAATAACTGTGAATCATCATAAATAAATCATCTATGATAAGAGATCTTTGTCTAGTCATGTGCTATGGCTGGCGTTCTACATAGGGGAGAGGGAAGGGAAACACCTTGTATATGCGTTTCCTGACCAGTTTGAACGATCGATTCAACActtatttatcttattgttCTTTGAGAAGATGACAGTGGAGAGACTCGAACCGTACTAGTGtggaataataaaataagaaagctGGCGATGCCTTGACTCGGCTATAGTGCACTATGGTAGACAGAGCAGATTTATTTCGTGCTTTACGAAGACTCGAGTTGATGGTTCAGTTCAACTTACTAGTTTTGATTGGACTTTGAATTTGCAAAAAGTCGTTGAAGGAGACAAGAAATCAGCCCTTcaacaagagagcataaaaatat

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5VWG9	Transcription initiation factor TFIID subunit 3 OS=Homo sapiens OX=9606 GN=TAF3 PE=1 SV=1
Q5HZG4	Transcription initiation factor TFIID subunit 3 OS=Mus musculus OX=10090 GN=Taf3 PE=1 SV=2
Q5F489	Transcription initiation factor TFIID subunit 3 OS=Gallus gallus OX=9031 GN=TAF3 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004501 (this species only) · gene tree & orthology
Ubiquitin family	E3\|E3 activity RING\|PHD · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00628 all species →	PHD	PHD-finger	Domain	Interproscan
PF07524 all species →	Bromo_TP	Bromodomain associated	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019786 all species →	Conserved_site	Zinc finger, PHD-type, conserved site	Interproscan
IPR009072 all species →	Homologous_superfamily	Histone-fold	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR019787 all species →	Domain	Zinc finger, PHD-finger	Interproscan
IPR011011 all species →	Homologous_superfamily	Zinc finger, FYVE/PHD-type	Interproscan
IPR001965 all species →	Domain	Zinc finger, PHD-type	Interproscan
IPR006565 all species →	Domain	Bromodomain associated domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46452 all species →	TRANSCRIPTION INITIATION FACTOR TFIID SUBUNIT 3	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0046982 all species →	Molecular Function	protein heterodimerization activity	Interproscan
GO:0002039 all species →	Molecular Function	p53 binding	Interproscan
GO:0005669 all species →	Cellular Component	transcription factor TFIID complex	Interproscan
GO:0008134 all species →	Molecular Function	transcription factor binding	Interproscan
GO:0045944 all species →	Biological Process	positive regulation of transcription by RNA polymerase II	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K14650	TAF3; transcription initiation factor TFIID subunit 3	-	Transcription machinery	ko03021	deepkoala

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.

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 →