Gene detail

Detailed information of ENSAVKP00000012906.1 in Catalaphyllia jardinei

Genomic Location: chr13:23366284...23371603
NR annotation: XP_020609724.1, transcription factor E2F6-like [Orbicella faveolata]
Species Catalaphyllia jardinei · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

ENSAVKT00000013808

TGGCCCAAAAGGACTGAACCCTGGAAACTTTATCACGTGATCGAGCATTGGCGCGAAACTTGAAAGCGCGCGCATTTATATTTTCCATTGAAGAGCGAAGGAGTGGATGAACCGAAAGAAATAAGCTTAGCCCTCACattttaagctgtttttgaaCATCTAGCCTTCGATCTCCCGGAAGAAGCTACTAGTGGTCTTCTGCAACTGTTCCTTCATATAATTGCCAGTTTTTGTTGAAACTTGCGAGCTATTTCAGACAACAAAAGAGACCGGAGTTCGCCATTCCTTTGTTGATCAATATGGCGTCCACGCGAAGATGTTCATTCATGGATCGAGGAAGGCCGCCGTTGAGTGCTCATAGCCATCAAGTCAATTCAGTTAGCAGGAACATTTTGGATGCTGATAGCTTTTTGTCGGACCCTATCAAGGCGAAAGCACGATTGTCGCCCTCATTCAAAAGCTCCAAAACTGCGCTTTGCACTCCCGATGTTTATTCGAAGGCCGAACGATCGGTTTGCCCAAGCTCCAGACCTCAGGTAAAACGTCGACTCGATCTGGACGAATCTTCGACAAGAATACGACACTCATTCAGAGCAGCAAAGACGAAGAGTTatgcaaaaaggaaaataaggAGAGATGTACAGCCTTACCCAAAATTGTTTGTGAAATCCCCCATAGAAAAGACTCGATACGACACATCACTTGGAATTTTGACGAAGAAATTTGTGGGGCTTTTGAGGAGCTCAGAAGATGGTGTTGTGGATCTGAACCAAGCTGCTGATCTTTTGGAAGTTCAAAAGCGAAGAATCTATGACATTACCAATGTGCTAGAGGGTGTTggattaattaaaaaaaagtcaaaGAACAACATTGAATGGAGAGGGACTTGCTACACTGATAGCTCTCGTCGAACGAAAGGAATGGGGTCAATTTCAGCACAGATCGTGGATCTTCACACAGATGTTGCTGATCTTGATGCTAAAGAGTGTTTCCTTGATAGGATGATTGAAGGCTGTCGTGCAGAACTCAAAAACCTCACCGAGGACTCTGAAGTTGCCAAATATGCATATGTCACATACAGAGACATACGGGATGTTACGCACTTCAAGAACAGGACTGTTATTGCAATCAAAGCCCCACCAGAAACAAGGTTGGAGGTACCAGATCCAAAGGAGAGTATCCAGATCTGGCTGAAGAGTGTAAGAGGTCCCATTGATGTCTACCTCTGTCCAGAGGACCAAGGTGGTCTCCCATCACCAATAAAGGACATCTCTCCAATCAAACGACCACCACCAGCACCAACAACTCCAAATCACTTCCTCCTGACACCTGAGAAAACCCCTCATGGTTCTGGTGGCTCAGTGATAATGCCAATGCAGAAGTTTAATGGGGAGGTACAGAGAAGTATTCCAATGCCATTGATCAGTCCACAGAAAAATCTGTTGTTGCAGACAAATGACAATGCCATTCTTGATGACTTGGACAGTGACACCCTGATTCCCCTTTCACCAAGTCTCACAGATGAAGAGTATTTATACACATTGACAGACACAGAAGGGATTACTGATCTATTTGAATTCTGGAACGAGgcatgatacatgtacatgttggtTTCAAGTATGTTTGGGTTGATGCTCATCTATACAGGTTTGGTTTTATCTTGTAATGGTCACAAAAAGGTTTACATTtctcaaatgaaaattttattttattacaataCTGGTTATTTTAGGTTTAAATATGTTAGGTAGAAGAAGAATTTTATGCTGCTTAACAGGGTACATGTAAGTACCAAGCTAAAAGAATAAGGTAGCTTAAAAGAAGATGGTATCTCTAAGCTGTAAGTAAACACAATACCATACTGATTATGTTACAATTGACTCTTTGCCTAATTTTTACAAGTtcagttttaataataataattttgtaagTCTTACAAATTGATATTTAATTAACTAGCCTGCATCGCTAACTCATCATGAGGTACAGGTAGATGCACAAAGCCAGACTAGAATTACATACTAGGTAGTCTTTGATTAACTGAACAAAGTAGCAGTTCTTTTCTTTAAACTGGTATGTAAATGAATATCACAAAACATTAGAACATAAAATaagccccccctcccccccccgaaaaaaaaactgaacaaagGAGCAATGAGATTGATCTTAGGAAAGTTTGAGTATATTATAGTTATTTTCAAATTTAGTTGGTAATGATTGTTGTGTCAACAAACAATAGGAACAAGTAATGTTACAAGGTAAAGCTTGTTAGAATAATTTGGAGTGAAAATTCAATAAAAGATTACTGGAAATACACTGTGAAATTATCTTGACTCTCTTACAACTTATATAGGCTTGTTCAACCTGAAAATCTGTCCACATTTAAAACTTAAAGATTTTAATTGGTTTGGGTATTTAGCTTTGTCACTTTTACTAACCCTCCAACCCAGTCCCCCCACcttttttctcttcattttcatCCATCTCTTCACATTGCTTACATGTAGATACAATTGACATTATCACTGTAACCATGGAAAGTGAACATACAGTAgtgttaaaaataaaaacagactTGGCTCAGTAAAAAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O00716	Transcription factor E2F3 OS=Homo sapiens OX=9606 GN=E2F3 PE=1 SV=1
P56931	Transcription factor E2F2 OS=Mus musculus OX=10090 GN=E2f2 PE=1 SV=2
O35261	Transcription factor E2F3 OS=Mus musculus OX=10090 GN=E2f3 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001904 (this species only) · gene tree & orthology
Transcription factor family	E2F · all TF in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02319 all species →	E2F_TDP	E2F/DP family winged-helix DNA-binding domain	Domain	Interproscan
PF16421 all species →	E2F_CC-MB	E2F transcription factor CC-MB domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036388 all species →	Homologous_superfamily	Winged helix-like DNA-binding domain superfamily	Interproscan
IPR003316 all species →	Domain	E2F/DP family, winged-helix DNA-binding domain	Interproscan
IPR037241 all species →	Homologous_superfamily	E2F-DP heterodimerization region	Interproscan
IPR032198 all species →	Domain	E2F transcription factor, CC-MB domain	Interproscan
IPR036390 all species →	Homologous_superfamily	Winged helix DNA-binding domain superfamily	Interproscan
IPR015633 all species →	Family	E2F Family	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12081 all species →	TRANSCRIPTION FACTOR E2F	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005667 all species →	Cellular Component	transcription regulator complex	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0046983 all species →	Molecular Function	protein dimerization activity	Interproscan
GO:0000978 all species →	Molecular Function	RNA polymerase II cis-regulatory region sequence-specific DNA binding	Interproscan
GO:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0090575 all species →	Cellular Component	RNA polymerase II transcription regulator complex	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 ENSAVKP00000012906.1.

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 Catalaphyllia jardinei 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 Catalaphyllia jardinei, 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 →