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Taf4b TATA-box binding protein associated factor 4b [ Rattus norvegicus (Norway rat) ]

Gene ID: 291773, updated on 4-Jan-2025

Summary

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Official Symbol
Taf4bprovided by RGD
Official Full Name
TATA-box binding protein associated factor 4bprovided by RGD
Primary source
RGD:1562997
See related
EnsemblRapid:ENSRNOG00000026023 AllianceGenome:RGD:1562997
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
RGD1562997
Summary
Predicted to enable DNA binding activity and NF-kappaB binding activity. Predicted to contribute to RNA polymerase II general transcription initiation factor activity. Predicted to be involved in positive regulation of stem cell proliferation; positive regulation of transcription initiation by RNA polymerase II; and transcription by RNA polymerase II. Predicted to be located in fibrillar center and nucleoplasm. Predicted to be part of transcription factor TFIID complex. Human ortholog(s) of this gene implicated in spermatogenic failure 13. Orthologous to human TAF4B (TATA-box binding protein associated factor 4b). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Kidney (RPKM 71.4), Adrenal (RPKM 34.3) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Taf4b in Genome Data Viewer
Location:
18p13
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 18 NC_086036.1 (6227299..6360970)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 18 NC_051353.1 (5952737..6086408)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 18 NC_005117.4 (6206939..6338794)

Chromosome 18 - NC_086036.1Genomic Context describing neighboring genes Neighboring gene SS18 subunit of BAF chromatin remodeling complex Neighboring gene mitochondrial ribosomal protein S18B, pseudogene 1 Neighboring gene proteasome 20S subunit alpha 8 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene uncharacterized LOC134482908 Neighboring gene potassium channel tetramerization domain containing 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. TAF4b and TAF4 differentially regulate mouse embryonic stem cells maintenance and proliferation. Bahat A, et al. Genes Cells, 2013 Mar. PMID 23350932
  2. Interaction of TAFII105 with selected p65/RelA dimers is associated with activation of subset of NF-kappa B genes. Yamit-Hezi A, et al. J Biol Chem, 2000 Jun 16. PMID 10849440
  3. Core promoter binding by histone-like TAF complexes. Shao H, et al. Mol Cell Biol, 2005 Jan. PMID 15601843, Free PMC Article
  4. 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

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables NF-kappaB 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
  
enables protein heterodimerization activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in mRNA transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of stem cell proliferation 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 initiation at RNA polymerase II promoter IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in fibrillar center IEA
Inferred from Electronic Annotation
more info
  
located_in fibrillar center ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm 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 4B
Names
TAF4b RNA polymerase II, TATA box binding protein (TBP)-associated factor, 105kDa

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_001426974.1 → NP_001413903.1  transcription initiation factor TFIID subunit 4B

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000018
    UniProtKB/TrEMBL
    F1LT11
    Related
    ENSRNOP00000109247.1, ENSRNOT00000173482.1

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_086036.1 Reference GRCr8

    Range
    6227299..6360970
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039097304.2 → XP_038953232.1  transcription initiation factor TFIID subunit 4B isoform X1

    UniProtKB/TrEMBL
    F1LT11
    Related
    ENSRNOP00000031359.8, ENSRNOT00000037955.8
    Conserved Domains (3) summary
    PHA03247
    Location:24 → 214
    PHA03247; large tegument protein UL36; Provisional
    pfam05236
    Location:606 → 792
    TAF4; Transcription initiation factor TFIID component TAF4 family
    pfam07531
    Location:257 → 346
    TAFH; NHR1 homology to TAF

  2. XM_008771990.4 → XP_008770212.1  transcription initiation factor TFIID subunit 4B isoform X1

    See identical proteins and their annotated locations for XP_008770212.1

    UniProtKB/TrEMBL
    F1LT11
    Related
    ENSRNOP00000098710.1, ENSRNOT00000143343.1
    Conserved Domains (3) summary
    PHA03247
    Location:24 → 214
    PHA03247; large tegument protein UL36; Provisional
    pfam05236
    Location:606 → 792
    TAF4; Transcription initiation factor TFIID component TAF4 family
    pfam07531
    Location:257 → 346
    TAFH; NHR1 homology to TAF

  3. XM_006254440.5 → XP_006254502.1  transcription initiation factor TFIID subunit 4B isoform X2

    See identical proteins and their annotated locations for XP_006254502.1

    UniProtKB/TrEMBL
    F1LT11
    Conserved Domains (2) summary
    pfam05236
    Location:438 → 679
    TAF4; Transcription initiation factor TFIID component TAF4 family
    pfam07531
    Location:89 → 177
    TAFH; NHR1 homology to TAF
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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