Taf5 TATA-box binding protein associated factor 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Taf5provided by RGD
Official Full Name: TATA-box binding protein associated factor 5provided by RGD
Primary source: RGD:1311332
See related: Ensembl:ENSRNOG00000020274 AllianceGenome:RGD:1311332
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable DNA binding activity; identical protein binding activity; and promoter-specific chromatin binding activity. Predicted to contribute to RNA polymerase II general transcription initiation factor activity. Predicted to be involved in transcription initiation from RNA polymerase II promoter. Predicted to be located in actin cytoskeleton; chromatin; and nucleoplasm. Predicted to be part of transcription factor TFIID complex and transcription factor TFTC complex. Orthologous to human TAF5 (TATA-box binding protein associated factor 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 57.7), Spleen (RPKM 46.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q54

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (255899774..255915259)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (245958428..245973914)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (266844480..266859965)

Chromosome 1 - NC_086019.1 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
contributes_to RNA polymerase II general transcription initiation factor activity	IBA Inferred from Biological aspect of Ancestor more info
contributes_to RNA polymerase II general transcription initiation factor activity	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II general transcription initiation factor activity	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables promoter-specific chromatin binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in DNA-templated transcription initiation	ISO Inferred from Sequence Orthology more info
involved_in RNA polymerase II preinitiation complex assembly	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
involved_in mRNA 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 regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in transcription initiation at RNA polymerase II promoter	IBA Inferred from Biological aspect of Ancestor more info
involved_in transcription initiation at RNA polymerase II promoter	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in actin cytoskeleton	IEA Inferred from Electronic Annotation more info
located_in actin cytoskeleton	ISO Inferred from Sequence Orthology more info
part_of chromatin	ISO Inferred from Sequence Orthology more info
NOT located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of transcription factor TFIID complex	IBA Inferred from Biological aspect of Ancestor more info
part_of transcription factor TFIID complex	ISO Inferred from Sequence Orthology more info
part_of transcription factor TFTC complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: transcription initiation factor TFIID subunit 5

Names: TAF5 RNA polymerase II, TATA box binding protein (TBP)-associated factor

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_001106365.1 → NP_001099835.1 transcription initiation factor TFIID subunit 5

See identical proteins and their annotated locations for NP_001099835.1

Status: PROVISIONAL

Source sequence(s)

CH473986

UniProtKB/TrEMBL

A6JHP4, D3ZH66

Related

ENSRNOP00000027482.4, ENSRNOT00000027482.5

Conserved Domains (4) summary

cd08044
Location:209 → 341

TAF5_NTD2; TAF5_NTD2 is the second conserved N-terminal region of TATA Binding Protein (TBP) Associated Factor 5 (TAF5), involved in forming Transcription Factor IID (TFIID)

COG2319
Location:457 → 738

WD40; WD40 repeat [General function prediction only]

cd00200
Location:470 → 737

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:471 → 539

7WD40; WD40 repeat [structural motif]