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    TAF1D TATA-box binding protein associated factor, RNA polymerase I subunit D [ Homo sapiens (human) ]

    Gene ID: 79101, updated on 5-Mar-2024

    Summary

    Official Symbol
    TAF1Dprovided by HGNC
    Official Full Name
    TATA-box binding protein associated factor, RNA polymerase I subunit Dprovided by HGNC
    Primary source
    HGNC:HGNC:28759
    See related
    Ensembl:ENSG00000166012 MIM:612823; AllianceGenome:HGNC:28759
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    JOSD3; RAFI41; TAFI41; TAF(I)41
    Summary
    TAF1D is a member of the SL1 complex, which includes TBP (MIM 600075) and TAF1A (MIM 604903), TAF1B (MIM 604904), and TAF1C (MIM 604905), and plays a role in RNA polymerase I transcription (Wang et al., 2004 [PubMed 15520167]; Gorski et al., 2007 [PubMed 17318177]).[supplied by OMIM, Jun 2009]
    Expression
    Ubiquitous expression in lymph node (RPKM 25.5), appendix (RPKM 22.4) and 25 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See TAF1D in Genome Data Viewer
    Location:
    11q21
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (93730194..93741495, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (93646573..93657877, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (93463360..93474661, complement)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene N-6 adenine-specific DNA methyltransferase 1 (putative) pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3839 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5397 Neighboring gene centrosomal protein 295 Neighboring gene small Cajal body-specific RNA 9 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr11:93471084-93472283 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5398 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:93474959-93475644 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:93476051-93476590 Neighboring gene small nucleolar RNA, H/ACA box 25 Neighboring gene small nucleolar RNA, H/ACA box 32 Neighboring gene microRNA 1304 Neighboring gene small nucleolar RNA, H/ACA box 18 Neighboring gene small nucleolar RNA, C/D box 6 Neighboring gene small nucleolar RNA, H/ACA box 1 Neighboring gene small nucleolar RNA, H/ACA box 40 Neighboring gene small nucleolar RNA, H/ACA box 8 Neighboring gene small nucleolar RNA, C/D box 5 Neighboring gene chromosome 11 open reading frame 54 Neighboring gene Sharpr-MPRA regulatory region 5970 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3840 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:93517986-93518180 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:93519733-93520232 Neighboring gene uncharacterized LOC124902851 Neighboring gene mediator complex subunit 17

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC5306, FLJ23363, FLJ32621, FLJ46181

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    part_of RNA polymerase transcription factor SL1 complex IEA
    Inferred from Electronic Annotation
    more info
     
    located_in centriolar satellite IDA
    Inferred from Direct Assay
    more info
     
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
     
    located_in mitotic spindle IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
     
    is_active_in nucleoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    TATA box-binding protein-associated factor RNA polymerase I subunit D
    Names
    Josephin domain containing 3
    RNA polymerase I-specific TBP-associated factor 41 kDa
    TATA box binding protein (TBP)-associated factor, RNA polymerase I, D, 41kDa
    TATA box-binding protein-associated factor 1D
    TATA-box binding protein associated factor, RNA polymerase I, D
    TBP-associated factor 1D
    transcription initiation factor SL1/TIF-IB subunit D

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_024116.4NP_077021.1  TATA box-binding protein-associated factor RNA polymerase I subunit D

      See identical proteins and their annotated locations for NP_077021.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the shortest transcript and encodes the functional protein.
      Source sequence(s)
      AP001273, BC001972, BQ774057
      Consensus CDS
      CCDS8293.1
      UniProtKB/Swiss-Prot
      Q6I9Y6, Q9H5J8
      Related
      ENSP00000410409.2, ENST00000448108.7
      Conserved Domains (1) summary
      pfam15333
      Location:31244
      TAF1D; TATA box-binding protein-associated factor 1D

    RNA

    1. NR_146090.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate 3' exon structure, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AA449756, AP001273, BC001972
    2. NR_146091.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate 3' exon structure, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AP001273

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

      Range
      93730194..93741495 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      93646573..93657877 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)