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Taf13 TATA-box binding protein associated factor 13 [ Rattus norvegicus (Norway rat) ]

Gene ID: 310784, updated on 13-Apr-2024

Summary

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Official Symbol
Taf13provided by RGD
Official Full Name
TATA-box binding protein associated factor 13provided by RGD
Primary source
RGD:1305398
See related
Ensembl:ENSRNOG00000020315 AllianceGenome:RGD:1305398
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
Summary
Predicted to enable DNA binding activity; TBP-class protein binding activity; and protein C-terminus binding activity. Predicted to be involved in transcription by RNA polymerase II. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of transcription factor TFIID complex. Human ortholog(s) of this gene implicated in autosomal recessive non-syndromic intellectual disability. Orthologous to human TAF13 (TATA-box binding protein associated factor 13). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Brain (RPKM 136.6), Kidney (RPKM 98.1) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
2q34
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (198893332..198903994)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (196205219..196215882)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (211359623..211370285)

Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene small Cajal body-specific RNA 2 Neighboring gene transmembrane protein 167B Neighboring gene WD repeat domain 47 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase-like Neighboring gene chloride channel CLIC-like 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Cloning and characterization of hTAFII18, hTAFII20 and hTAFII28: three subunits of the human transcription factor TFIID. Mengus G, et al. EMBO J, 1995 Apr 3. PMID 7729427, Free PMC Article
  2. Structural bioinformatics of the general transcription factor TFIID. Malkowska M, et al. Biochimie, 2013 Apr. PMID 23146842
  3. Dominant and redundant functions of TFIID involved in the regulation of hepatic genes. Tatarakis A, et al. Mol Cell, 2008 Aug 22. PMID 18722179
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables TBP-class protein binding ISO
Inferred from Sequence Orthology
more info
  
enables protein heterodimerization activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
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 transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in nucleolus IEA
Inferred from Electronic Annotation
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
  
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
  

General protein information

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Preferred Names
transcription initiation factor TFIID subunit 13
Names
TAF13 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)

  1. NM_001303616.1 → NP_001290545.1  transcription initiation factor TFIID subunit 13

    See identical proteins and their annotated locations for NP_001290545.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. It encodes the protein.
    Source sequence(s)
    AW144407, FM054549, FM135814, JAXUCZ010000002
    UniProtKB/TrEMBL
    A0A9K3Y8H1, B2RYQ7, F7F1P7
    Related
    ENSRNOP00000027530.5, ENSRNOT00000027530.6
    Conserved Domains (1) summary
    cd07978
    Location:29 → 118
    TAF13; The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex

RNA

  1. NR_130639.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an internal exon compared to variant 1. This variant is represented as non-coding because the predicted protein does not meet RefSeq quality criteria.
    Source sequence(s)
    AW144407, CB557548, JAXUCZ010000002

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

  1. NC_086020.1 Reference GRCr8

    Range
    198893332..198903994
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001107716.1: Suppressed sequence

    Description
    NM_001107716.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
Nucleotide Protein Strain
Heading Accession and Version

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