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    Taf1b TATA-box binding protein associated factor, RNA polymerase I, B [ Mus musculus (house mouse) ]

    Gene ID: 21340, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Taf1bprovided by MGI
    Official Full Name
    TATA-box binding protein associated factor, RNA polymerase I, Bprovided by MGI
    Primary source
    MGI:MGI:109577
    See related
    Ensembl:ENSMUSG00000059669 AllianceGenome:MGI:109577
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    p63; TAFI68; Tafi86; 4930408G01Rik; A230108M10Rik
    Summary
    Predicted to enable RNA polymerase I core promoter sequence-specific DNA binding activity. Predicted to be involved in RNA polymerase I preinitiation complex assembly and nucleolar large rRNA transcription by RNA polymerase I. Predicted to act upstream of or within transcription by RNA polymerase I. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of RNA polymerase I core factor complex and RNA polymerase transcription factor SL1 complex. Is expressed in heart and limb. Human ortholog(s) of this gene implicated in Lynch syndrome and mismatch repair cancer syndrome. Orthologous to human TAF1B (TATA-box binding protein associated factor, RNA polymerase I subunit B). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in CNS E18 (RPKM 7.5), CNS E14 (RPKM 6.5) and 24 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Taf1b in Genome Data Viewer
    Location:
    12 A1.3; 12 8.49 cM
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (24548580..24608570)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (24498581..24558571)

    Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene nuclear encoded tRNA glutamic acid 14 (anticodon CTC) Neighboring gene STARR-seq mESC enhancer starr_31751 Neighboring gene actin related protein 2/3 complex, subunit 5 pseudogene Neighboring gene STARR-seq mESC enhancer starr_31752 Neighboring gene STARR-positive B cell enhancer mm9_chr12:25256927-25257228 Neighboring gene grainyhead like transcription factor 1 Neighboring gene CapStarr-seq enhancer MGSCv37_chr12:25278331-25278514 Neighboring gene cytochrome c oxidase subunit VIIa polypeptide 2-like pseudogene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Identification of novel nuclear protein interactions with the N-terminal part of filamin A. Qiu H, et al. Biosci Biotechnol Biochem, 2011. PMID 21228480
    2. Expression, cloning and cDNA sequence of a fibroblast serum-regulated gene encoding a putative actin-associated protein (p27). Almendral JM, et al. Exp Cell Res, 1989 Apr. PMID 2924801
    3. The nucleolus as a stress sensor: JNK2 inactivates the transcription factor TIF-IA and down-regulates rRNA synthesis. Mayer C, et al. Genes Dev, 2005 Apr 15. PMID 15805466, Free PMC Article
    4. Gene structure and evolution of Tieg3, a new member of the Tieg family of proteins. Wang Z, et al. Gene, 2004 Jan 21. PMID 14697507
    5. Ribosomal DNA promoter recognition is determined in vivo by cooperation between UBTF1 and SL1 and is compromised in the UBTF-E210K neuroregression syndrome. Tremblay MG, et al. PLoS Genet, 2022 Feb. PMID 35139074, Free PMC Article

    See all (28) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 
    • Targeted (3)  1 citation

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA polymerase I core promoter sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase I core promoter sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase I core promoter sequence-specific DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in RNA polymerase I preinitiation complex assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in RNA polymerase I preinitiation complex assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in nucleolar large rRNA transcription by RNA polymerase I IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within transcription by RNA polymerase I TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of RNA polymerase I core factor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of RNA polymerase I core factor complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of RNA polymerase I core factor complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of RNA polymerase I transcription regulator complex TAS
    Traceable Author Statement
    more info
    		 PubMed 
    part_of RNA polymerase transcription factor SL1 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of RNA polymerase transcription factor SL1 complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of RNA polymerase transcription factor SL1 complex 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 nucleoplasm TAS
    Traceable Author Statement
    more info
    		  

    General protein information

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    Preferred Names
    TATA box-binding protein-associated factor RNA polymerase I subunit B
    Names
    RNA polymerase I-specific TBP-associated factor 68 kDa
    TATA box binding protein (Tbp)-associated factor, RNA polymerase I, B
    TATA box-binding protein-associated factor 1B
    TBP-associated factor 1B
    TBP-associated factor RNA polymerase I 68
    transcription factor TAFI68
    transcription initiation factor SL1/TIF-IB subunit B

    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_020614.2 → NP_065639.2  TATA box-binding protein-associated factor RNA polymerase I subunit B

      See identical proteins and their annotated locations for NP_065639.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the functional protein.
      Source sequence(s)
      AC125067, AK131963, CK619940
      Consensus CDS
      CCDS36419.1
      UniProtKB/Swiss-Prot
      E9QJY7, P97358, Q08AT7, Q3V292, Q6NSS9
      Related
      ENSMUSP00000075339.8, ENSMUST00000075954.9
      Conserved Domains (1) summary
      pfam11781
      Location:10 → 39
      RRN7; RNA polymerase I-specific transcription initiation factor Rrn7

    RNA

    1. NR_028341.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC125067, BC086643, CJ068630, CK619940, CN721617
      Related
      ENSMUST00000221372.2

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000078.7 Reference GRCm39 C57BL/6J

      Range
      24548580..24608570
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006515051.2 → XP_006515114.1  TATA box-binding protein-associated factor RNA polymerase I subunit B isoform X1

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P97358.2 GenPept UniProtKB/Swiss-Prot:P97358

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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