Gene detail

Detailed information of BRAKERKYLP00000025039.1 in Mastigias papua

Genomic Location: chr8:13412755...13437140
NR annotation: XP_048582001.1, transcription initiation factor TFIID subunit 2 isoform X1 [Nematostella vectensis]
Species Mastigias papua · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERKYLT00000025039

ATGCACCAAGTGCTGTGTATCACATCAATTGATTTAGTAAAAAGAACATTATATGGATTTGTGGAGCTGCATATTTTACCATTGAATCCAAATCTCTCAAAGGTCAAAATCAATAGCAGGCAATGCCAGGTTTATAGAGTCTCTGTCAAGGGCACTGGGTTTTCAAAGTGGCTGGAAGCAAGTTTTCAATTATCAGATGGTGCAAAGAATGTCTGTCATGAAGGGAAAAAACGGAATTTGGATTATTTTTGCACAAACTGGCAAAACATTGTGTCATCAACAGAAATAAGTGAAGGGGGCGGTGAGCTTACTGTTAAACTTCCAAAGGAAGCAGCACCATTAGCAGCAGCTGGGAGATTCATTCGAATAAGTGTGGAATTTGTTTTGGCAAACCCAAAAGGAGGTATTCATTTTGTAGTGCCAGATGGTGAAGGAAGTCTAGCGGAGAGAGGAGCTCATGTTTACAGTTGTAGTTATGGAAATTCATCACGACTATGGTTTCCTTGCATTGATTCCTATCATGACATATGCACGTGGAAAATTGACTTTACTGTCAATAAATCTCTTACTGCTGTTTGTCCAGGTGAATTGCAAGAGAAGATTCTTTCACATGATGAACAGAAAATCACTTACAGGTATATCATTACAACTCCAACATCAGCACCAAATATTGGCTTTGCAATTGGTCCATTCGAAATTTATATCGATCCAAACATGACTGATGTCACAAACTTTTGTCTTCCTGGATTACTTCCATTGTTGAAGAACTCTGTGTCTTTTCTTTCGGAGatattttacttcttTGAAGAGAATCTAAACTCTCGATATCCATATAATTCATATAAGCAAGTTTTTGTGGATGAAACATCTGCTGACTTTCAGACTTTTGCGTCGATGTCAATTTTCAACACGAATCTGCTACATTCAAATAGAATCATCGATCAGACGATTCTGACGAGGACCGCTTTAGCGCAAGCACTATCAGAGCAGTTCTTTGGCTGTTTTGTGGTCATGAGTTCATGGAATGACTATTGGCTACCGCTTGGCATATCTCAATATTTGTGCGGTCTTTTTGTGAAGAAGACATTTGGTAATAACGAATATCGGCATAAAATATACCGGGAAATGGAAGCACTTTGTATGTATGAAGTTGATGGACCAGGCCTTCCCCCTCTATTTCCTGTATCTCTAGCCTCAGATCCACGCCAAACTGCTGGTGAAGCAGAAGGACAGCCTCCGCATCAAAGTATTGCAACAGGTGTAACACAGCATCACCCACATTTGGTGTCCCCAAAACAGATTGCATTCCTGCGAACCAAGGCACATTTGGTTATCAGAATGGTAGATGGGAGAATATCACAGGATCTTCTGCTGCAGGCTCTGAACAAAGTTTTATCACTAGCAaatactgctgctgctgccaaTCATTCAGAGCACATGACATGGAATAATTTGCTGATATCAACTGCAGGTTTTTTGATGACTATATCATCTGTCTCTGGAAAGGACATCAACACCGTCATGGACCAATGGATTTGCCACTCTGGAATAACTAAATTCATGGGGAATTTCTCATTCAACAGAAAGCGGAACATCGTAGAACTGGACATAACACAAGAGATGGGAAAGGGATACCAGAAATATGTTGGTCCCTTGATTGTATCAATACAAGAGCTCGATGGTTCATTCACTCACACAGTTCAAGTTGAAGATATTGTCAGCCACCATGAACTCCCATGTCACTCAAAAAGCAGGAGgaataaaaagaaaaagataccATTAGTGACTGGGGAAGAGGTTGACATGGACCTTAATCAAACCATAGACACGGATTCTCCCGTTCTTTGGCTTCGAATTGATCCTGATATGACATGGACTAGGCAGGTGTCATTAGAACAGCCAGATTACATGTGGCAGTACCAACTGCGTTATGAACGGGACGTTACTTCGCAAATTGAGGCGGCTAGAGCATTAAAAAAATTTCCAAGTATCCAGAGCAAATCAGCCTTGCTTGATATGGTCTGCCAACAAGAGTGCTTTTACCGGGTTAGGATGTTAGCATCAGAGTGTCTTGTCAAGATTCTTTCAGATGACCCTGATGCTTATGAAGGTGAAGAGACCTTGATCAACTGTTTTCAAAAGCTTTATGGCTCGCAAGGTTGTCCAAGCCTGCCAAAATTCAACGATTTTTCCAATTTTATTTCGTATTTTGTCCAAAAGGAGCTTCCCGTTAACATAGCAAAGTACCGAAATTCACACTATCAATGTCCTATGAAGCTTCTCCAGTTAATTTTGGACCTCATCAAATACAACGACAATCGATACAATAAGTTTTCAGATGGTTACTACAAGGCTTGTCTGATCGATGCCCTTACAAATGCAGTAACATCAGCTGTAACAATGGTCGCTACTGACAGcGATGGGAAACAGTTGATTCCTGCCCAACAAGATGCCCAGCTTATTCTTGGAGAACTCGTCAGACATTTGAACCTGGAAAAATTGCTTCCAACTTATAGATATGCTGTGACTCAAAGCTGTTTAAAAACTATACGTGCTCTGCAAGTCAATGGCCACATTCCAGCTGAATCTGCTATTTTCAGTACATATGCAAGATACGGCACCTTTATCGATGTTCGAAAAGTAGCTATCGATTGTCTTGTTGACTTTGTTCGCGTCGAATCAAGTGACAAGGATCTTCGTTTCCTCCTCGATCTTGTTAAAGTTGATGCTGTTTCTGAAGTGAAATACCATATTTTGCGCTCATTGCAACTTAACCCTCCCTTCACAAGAAAGTCAGATTCGCACTTGAATTCGCTTTGGCTGGTGGAGAGATTATGGGAGATTCTTAACATTTACAGTGCATATGACTACCAGCTGAGATGTGAAGCAATTGAACTGTACAATGCTCTTTATGGTCGAGTTACACCATCCTGTGTGCCAGCCCAAGGGCTCGGAGTTGTGATTGATCTTCGTGAGCGAACAGCTATTTCAAATATGTCACCATTGCCTGCAGCTGCATCACCGATAATGTATCCAGGATATGAAGAAGGGATGATAGGCAGAAAGGCGCAAAAAAGGAAACAGCTATCACGAACTTCTTCTCCACTACCAGATCACGTGGACTCCCCAATGAACATGGAATCAAGCCTCTCGATTGGCAATAAACTCAAGCTGAAAATTAAACTGGCCGGAGATGATGGTAGTGGACCAGAGAGCGGTGGTGAGACACAGTCGCCAATGATGCTGCAAGATTCCGGCTCATCCGGCCTAACCGAGGACCAACTTGCTAGgaagataaagaagaaaaagaagaagaagcacAAGCATAAAGACAGGAAGGAACGGGATTTTGACTCAGACAGGTTTGGGAGAGTAAGCACAGATGGAAGTGTGCCACCATCTCCATTTGATAGTTTTATTTAG

Transcript

BRAKERKYLT00000025039

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5ZIT8	Transcription initiation factor TFIID subunit 2 OS=Gallus gallus OX=9031 GN=TAF2 PE=2 SV=1
Q6P1X5	Transcription initiation factor TFIID subunit 2 OS=Homo sapiens OX=9606 GN=TAF2 PE=1 SV=3
Q32PW3	Transcription initiation factor TFIID subunit 2 OS=Danio rerio OX=7955 GN=taf2 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002711 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01433 all species →	Peptidase_M1	Peptidase family M1 domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027268 all species →	Homologous_superfamily	Peptidase M4/M1, CTD superfamily	Interproscan
IPR037813 all species →	Family	Transcription initiation factor TFIID subunit 2	Interproscan
IPR014782 all species →	Domain	Peptidase M1, membrane alanine aminopeptidase	Interproscan
IPR042097 all species →	Homologous_superfamily	Aminopeptidase N-like , N-terminal domain superfamliy	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15137 all species →	TRANSCRIPTION INITIATION FACTOR TFIID	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000976 all species →	Molecular Function	transcription cis-regulatory region binding	Interproscan
GO:0003682 all species →	Molecular Function	chromatin binding	Interproscan
GO:0005669 all species →	Cellular Component	transcription factor TFIID complex	Interproscan
GO:0006367 all species →	Biological Process	transcription initiation at RNA polymerase II promoter	Interproscan
GO:0016251 all species →	Molecular Function	RNA polymerase II general transcription initiation factor activity	Interproscan
GO:0008237 all species →	Molecular Function	metallopeptidase activity	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	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
K03128	TAF2; transcription initiation factor TFIID subunit 2	-	Chromosome and associated proteins	ko03036	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 Mastigias papua 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 Mastigias papua, 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 →