Gene detail

Detailed information of BRAKERYMEP00000003196.1 in Astreopora myriophthalma

Genomic Location: BLFK01000093.1:974531...976870
NR annotation: XP_029192881.2, general transcription factor 3C polypeptide 4-like [Acropora millepora]
Species Astreopora myriophthalma · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERYMET00000003196

atggcgtccaCAGAAGCACAAGATGGAAAGTCAATGGAAACTGTGAAATTGAGTTATTCTCCGTCATATCCCAACGCTATATCCTGGTCCCGAGATGGCCGCTTATCAGTAATAACCGATCAGTGTGTTTACGTTCTCACTCCGATATCTTCGCCTTTTCACCCCAATTTGAGTTTGGAAAGAACTTCTATCAGGTGCGACAAAAAGCCTTTTCAGGTGGATGTTGGAATAGATCGCCACCAAATCACTTCGGAAGATAGTTTTGAGTGGAATTTAGACCCGAGGGTCAATAATTTCCTGGTTAATTCCACCGCTTTTCAAAAAATCGCGTGGTCACCACTTAACTGCGACGGACATGGCAGATGCGTGATCGCAACGCTCTTTTCGGATCACCAGCTGCGAATCCACAAGTGTCCTACTCTAGGGACTAAGTGGAGGGAAGCCTATGAGTTGTCGCCTTTACTGACTCGATATCTTAAAACGCACAAGTTTCAGATTAACCAAGACATAATGCAAGCAGATCTGGGAAGATCAAAGCAAGCCGCCCCTATCAAAAAAAGCAACTATTCTCAGTTTGTCCAGCGAGTTCAAATGCTTGCATTTTCCTCACTGCTTTGGTTTTCGGAGATCTACCCGCCATTCAACGATTCCTGTGCCACGGACCCAAATGGTTCAGTTGAAAACCACCAGTTTGCTTTGCTGGCGACAGGTACACAAAGCGGCCACGTCATTTTTTGGAAGGTGACAGCACCTGTGAGAATTAACAACCCAGAGGGCATTCAGCTGGGAGGGTTTCTAAATACCCAACAGTCATGGCCAAGTTCACTGGCTTGGCAACAACTCAATAACAATCAGGGCATATTGGCAGTTGGCAGCTCAGATGGGTACATTAAGGCTTTTAGCATTAAGGTATTGCCATTACTTATTGGAGTGGCACAGTACGTTCTGTGGGGAGACAGGGATGAAATGCAAGTGCAGATGTTAGAGTGGCAGCCCTCTTGTCAGGTTGACAGTGGCTGTTATTGCCTTGTCGCGTGCAAAGGATCTTCAGTCATAACATTTTCCATGACTGTCAGAGATGGCTTCATTGTTGAAAAACCAATCCAGAAGATAGTTTCCAAAGTGCACAGAATGCCAATCACTGGGTTGCATTGCATAGAAAATGGCACAATCTTTACCTGCAGTTTGGATGGCTCAGTGCAGATGTTAACAGATAATGGAAATGTATCAAGACCTGTTAATTATGATGTCAAGGAAGACTTCTCTTGCCATGGGATAGGGGCGTCTGCAAACGGTGCCATCATTACATTGTTCCTTGCCCCCTCTAGCTACACTCATCAATCGCTGGAATCACATCAAAGTCACATTGCCTTTGTAAACATTGTTTGTGGATTGAAATCAATTCTGCAGCTTCTGAACTGTGATTGTTTTCAAATGGAGAAGAAATGGGATGTATGCAAAGTCCTTCAATACTTCATCCATCACTGCAAAGAGACAAGGGAAGAGGTCCATCAACTGGTTGTCGCAGAGGATTTAGAAACACGTTCGCATGCTCAACTGATTTTGAGACAGCATGTGCTTTCTCTGATTGTCTTAACTTTACAGAATGATCAGCAGGAACTGAACAAGACATTCCTGACAGAATGTTCACATCAGCTTGAATGTACAGttaattacatgtacaaacGTCTGGCAACTACTTTTTTAAGAAGTTGGCTGGTTGCAAGTGAATTAGTATCTGTCAATCGCTTAGATTCTGTAGCAGCATTGTTGACTTGTGACTGGCTGATGATGAAGTTTCGTGATTCTGCTACACTTAATTTGGTGAACGAAGTCTACCAAGCCTGCAATGATGTTGATGGCCTCAACGTGCTCTCCTCTTTTCaagagaaaaaagaggaaaGCCTCAATGACATGTCCTCATCAAAAACTGTTGAAACACCAGGTACCATCCAAGGTGTAGACTCTGCTGCAGCAAAGAATAAAACTGAACCAGTTACTGAACTGATGGATTCAAATGAAAGCCCTGAGCAAGTTAGAGTGGTTGCTTCAGAGGATGAATGCAAGAACACACACAGCTTCCCAGCTAGAGAGAAATGCCAGATTTGCCAGAGTGCTATTCCTATGGAGAGCATAAGCCACGGAACATGTTTAAATGGACATAAATGGCAGCGTTGTTGTGTGtcatttgctgtttgttttgatttaagACCAAAATGTTGTCAGGACTGTAGTCACTGTGTCTCAGTTGCAGGTGGTGGCTCATCACCCTGGTTACAAAACCTTTTACATAAAACATCAAAATGCCCTTTTTGTTTGGGCTtctttaaatattattaa

Transcript

BRAKERYMET00000003196

Protein

UniProt (Swiss-Prot top hit)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005269 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12657 all species →	TFIIIC_delta	Transcription factor IIIC subunit delta bet-propeller domain	Repeat	Interproscan
PF12660 all species →	zf-TFIIIC	Putative zinc-finger of transcription factor IIIC complex	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR024761 all species →	Domain	Transcription factor IIIC, 90kDa subunit, N-terminal	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR024764 all species →	Domain	Transcription factor IIIC, putative zinc-finger	Interproscan
IPR044230 all species →	Family	General transcription factor 3C polypeptide 4	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15496 all species →	GENERAL TRANSCRIPTION FACTOR 3C POLYPEPTIDE 4 FAMILY	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0000127 all species →	Cellular Component	transcription factor TFIIIC complex	Interproscan
GO:0004402 all species →	Molecular Function	histone acetyltransferase activity	Interproscan
GO:0006384 all species →	Biological Process	transcription initiation at RNA polymerase III promoter	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
K11310	GTF3C4, KAT12; general transcription factor 3C polypeptide 4	EC:2.3.1.48	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 Astreopora myriophthalma 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 Astreopora myriophthalma, 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 →