Taf1 TATA-box binding protein associated factor 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Taf1provided by RGD
Full Name: TATA-box binding protein associated factor 1provided by RGD
Primary source: RGD:1562050
See related: Ensembl:ENSRNOG00000002565 AllianceGenome:RGD:1562050
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: RGD1562050
Summary: Predicted to enable several functions, including RNA polymerase I general transcription initiation factor activity; RNA polymerase II core promoter sequence-specific DNA binding activity; and RNA polymerase II general transcription initiation factor activity. Predicted to contribute to H3K27me3 modified histone binding activity. Involved in response to xenobiotic stimulus. Located in nucleus. Human ortholog(s) of this gene implicated in X-linked dystonia-parkinsonism and syndromic X-linked intellectual disability. Orthologous to human TAF1 (TATA-box binding protein associated factor 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 146.0), Spleen (RPKM 129.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: Xq22

Exon count:: 40

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	X	NC_086039.1 (70680901..70756535)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	X	NC_051356.1 (66640915..66716543)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	X	NC_005120.4 (71412291..71486456)

Chromosome X - NC_086039.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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?

Striatal Cholinergic Dysregulation after Neonatal Decrease in X-Linked Dystonia Parkinsonism-Related TAF1 Isoforms.
Title: Striatal Cholinergic Dysregulation after Neonatal Decrease in X-Linked Dystonia Parkinsonism-Related TAF1 Isoforms.
Deletion of the TAF1 gene in embryonic animals using CRISPR-Cas9 alters the morphology and function of the cerebellum and cerebral cortex.
Title: TAF1-gene editing alters the morphology and function of the cerebellum and cerebral cortex.
the distribution of N-TAF1 protein could represent a key molecular characteristic contributing to the pattern of striatal degeneration in DYT3 dystonia.
Title: Identification and localization of a neuron-specific isoform of TAF1 in rat brain: implications for neuropathology of DYT3 dystonia.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

TAF2A2-1 (e-PCR)
- UniSTS:257056

TAF2A2-3 (e-PCR)
- UniSTS:257058

AI548344 (e-PCR)
- UniSTS:243528

px-35c7 (e-PCR)
- UniSTS:257629

RH131488 (e-PCR)
- UniSTS:214771

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
contributes_to H3K27me3 modified histone binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase I general transcription initiation factor activity	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
NOT enables acetyl-CoA binding	ISO Inferred from Sequence Orthology more info
enables histone acetyltransferase activity	ISO Inferred from Sequence Orthology more info
enables kinase activity	ISO Inferred from Sequence Orthology more info
enables lysine-acetylated histone binding	ISO Inferred from Sequence Orthology more info
enables nuclear receptor binding	ISO Inferred from Sequence Orthology more info
enables p53 binding	ISO Inferred from Sequence Orthology more info
enables promoter-specific chromatin binding	ISO Inferred from Sequence Orthology more info
enables protein heterodimerization activity	ISO Inferred from Sequence Orthology more info
enables protein kinase activity	ISO Inferred from Sequence Orthology more info
enables protein serine/threonine kinase activity	ISO Inferred from Sequence Orthology more info
enables transcription regulator inhibitor activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin conjugating enzyme activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in DNA damage response	ISO Inferred from Sequence Orthology more info
involved_in RNA polymerase II preinitiation complex assembly	ISO Inferred from Sequence Orthology more info
involved_in cellular response to ATP	ISO Inferred from Sequence Orthology more info
involved_in cellular response to UV	ISO Inferred from Sequence Orthology more info
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in mRNA transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in midbrain development	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of protein autoubiquitination	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of proteasomal ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology 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 protein polyubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein stabilization	ISO Inferred from Sequence Orthology more info
involved_in response to xenobiotic stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in transcription initiation at RNA polymerase I promoter	ISO Inferred from Sequence Orthology more info
involved_in transcription initiation at RNA polymerase II promoter	ISO Inferred from Sequence Orthology more info
involved_in ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of MLL1 complex	ISO Inferred from Sequence Orthology more info
part_of chromatin	ISO Inferred from Sequence Orthology more info
located_in nucleolus	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
located_in pronucleus	ISO Inferred from Sequence Orthology more info
part_of transcription factor TFIID complex	ISO Inferred from Sequence Orthology more info
part_of transcription regulator complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: transcription initiation factor TFIID subunit 1

Names: TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor; transcription initiation factor TFIID subunit 1-like

NP_001178652.1

EC 2.7.11.1

XP_038955671.1

EC 2.7.11.1

XP_038955673.1

EC 2.7.11.1

XP_063136099.1

EC 2.7.11.1

XP_063136100.1

EC 2.7.11.1

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_001191723.1 → NP_001178652.1 transcription initiation factor TFIID subunit 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000021

UniProtKB/TrEMBL

A0A8I6A7M0, A0A8I6A7N8

Related

ENSRNOP00000087648.1, ENSRNOT00000003494.8

Conserved Domains (5) summary

cd05511
Location:1528 → 1640

Bromo_TFIID; Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to ...

pfam09247
Location:33 → 86

TBP-binding; TATA box-binding protein binding

pfam12157
Location:586 → 1048

DUF3591; Protein of unknown function (DUF3591)

pfam14797
Location:1742 → 1833

SEEEED; Serine-rich region of AP3B1, clathrin-adaptor complex

pfam15288
Location:1282 → 1317

zf-CCHC_6; Zinc knuckle

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_086039.1 Reference GRCr8

Range

70680901..70756535

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039099743.2 → XP_038955671.1 transcription initiation factor TFIID subunit 1 isoform X1

UniProtKB/TrEMBL

A0A8I6A7N8

Conserved Domains (5) summary

cd05511
Location:1528 → 1640

Bromo_TFIID; Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to ...

pfam09247
Location:28 → 86

TBP-binding; TATA box-binding protein binding

pfam12157
Location:586 → 1049

DUF3591; Protein of unknown function (DUF3591)

pfam15288
Location:1282 → 1317

zf-CCHC_6; Zinc knuckle

NF033609
Location:1657 → 1890

MSCRAMM_ClfA; MSCRAMM family adhesin clumping factor ClfA
XM_063280029.1 → XP_063136099.1 transcription initiation factor TFIID subunit 1 isoform X2

UniProtKB/TrEMBL

A0A8I6A7N8
XM_039099745.2 → XP_038955673.1 transcription initiation factor TFIID subunit 1 isoform X3

UniProtKB/TrEMBL

A0A8I6A7N8

Conserved Domains (5) summary

cd05511
Location:1507 → 1619

Bromo_TFIID; Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to ...

pfam09247
Location:28 → 86

TBP-binding; TATA box-binding protein binding

pfam12157
Location:565 → 1028

DUF3591; Protein of unknown function (DUF3591)

pfam15288
Location:1261 → 1296

zf-CCHC_6; Zinc knuckle

NF033609
Location:1636 → 1869

MSCRAMM_ClfA; MSCRAMM family adhesin clumping factor ClfA
XM_063280030.1 → XP_063136100.1 transcription initiation factor TFIID subunit 1 isoform X4

UniProtKB/TrEMBL

A0A8I6A7N8