Gtf2a1 general transcription factor 2A subunit 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Gtf2a1provided by RGD
Official Full Name: general transcription factor 2A subunit 1provided by RGD
Primary source: RGD:69246
See related: EnsemblRapid:ENSRNOG00000004300 AllianceGenome:RGD:69246
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Tf2a; TfIIa
Summary: Predicted to enable several functions, including RNA polymerase II core promoter sequence-specific DNA binding activity; RNA polymerase II general transcription initiation factor activity; and general transcription initiation factor binding activity. Predicted to be involved in positive regulation of transcription initiation by RNA polymerase II and transcription by RNA polymerase II. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of transcription factor TFIIA complex; transcription factor TFIID complex; and transcription preinitiation complex. Orthologous to human GTF2A1 (general transcription factor IIA subunit 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Adrenal (RPKM 145.9), Kidney (RPKM 140.8) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 6q31

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	6	NC_086024.1 (116219614..116252220, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	6	NC_051341.1 (110488891..110521502, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	6	NC_005105.4 (115321110..115352659, complement)

Chromosome 6 - NC_086024.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II core promoter sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II general transcription initiation factor activity	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II general transcription initiation factor binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II-specific DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables TBP-class protein binding	ISO Inferred from Sequence Orthology more info
enables protein heterodimerization activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription initiation by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in transcription initiation at RNA polymerase II promoter	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of transcription factor TFIIA complex	IBA Inferred from Biological aspect of Ancestor more info
part_of transcription factor TFIIA complex	IEA Inferred from Electronic Annotation more info
part_of transcription factor TFIIA complex	ISO Inferred from Sequence Orthology more info
part_of transcription factor TFIID complex	ISO Inferred from Sequence Orthology more info
part_of transcription preinitiation complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: transcription initiation factor IIA subunit 1

Names: TFIIA large subunit; general transcription factor 2a, 1; general transcription factor IIA subunit 1; general transcription factor IIa, 1 (37kD and 19kD subunits)

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_022208.2 → NP_071544.1 transcription initiation factor IIA subunit 1

See identical proteins and their annotated locations for NP_071544.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000006

UniProtKB/Swiss-Prot

O08949

UniProtKB/TrEMBL

A0A8I6A0U6, A6JEC8

Related

ENSRNOP00000091168.2, ENSRNOT00000119546.2

Conserved Domains (1) summary

pfam03153
Location:13 → 377

TFIIA; Transcription factor IIA, alpha/beta subunit

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086024.1 Reference GRCr8

Range

116219614..116252220 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006240410.4 → XP_006240472.1 transcription initiation factor IIA subunit 1 isoform X1

UniProtKB/TrEMBL

A0A8I6APY1

Conserved Domains (1) summary

pfam03153
Location:1 → 338

TFIIA; Transcription factor IIA, alpha/beta subunit
XM_039112999.2 → XP_038968927.1 transcription initiation factor IIA subunit 1 isoform X1

UniProtKB/TrEMBL

A0A8I6APY1

Conserved Domains (1) summary

pfam03153
Location:1 → 338

TFIIA; Transcription factor IIA, alpha/beta subunit
XM_039113000.2 → XP_038968928.1 transcription initiation factor IIA subunit 1 isoform X1

UniProtKB/TrEMBL

A0A8I6APY1

Related

ENSRNOP00000086237.1, ENSRNOT00000104002.2

Conserved Domains (1) summary

pfam03153
Location:1 → 338

TFIIA; Transcription factor IIA, alpha/beta subunit