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

    Gene ID: 291773, updated on 28-Oct-2024

    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, Oct 2024]
    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 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
      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

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