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Taf1d TATA-box binding protein associated factor, RNA polymerase I subunit D [ Rattus norvegicus (Norway rat) ]

Gene ID: 363017, updated on 10-Oct-2024

Summary

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Official Symbol
Taf1dprovided by RGD
Official Full Name
TATA-box binding protein associated factor, RNA polymerase I subunit Dprovided by RGD
Primary source
RGD:1309627
See related
EnsemblRapid:ENSRNOG00000010921 AllianceGenome:RGD:1309627
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
Josd3; RGD1309627
Summary
Predicted to enable identical protein binding activity. Predicted to be involved in regulation of transcription, DNA-templated. Predicted to be located in cytosol; microtubule cytoskeleton; and nucleolus. Predicted to be part of RNA polymerase transcription factor SL1 complex. Predicted to be active in nucleoplasm. Orthologous to human TAF1D (TATA-box binding protein associated factor, RNA polymerase I subunit D). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Thymus (RPKM 232.1), Spleen (RPKM 180.2) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Taf1d in Genome Data Viewer
Location:
8q12
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (20427894..20438046)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (12146511..12156647)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (13861242..13871508)

Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102552229 Neighboring gene similar to human chromosome 11 open reading frame 54 Neighboring gene small nucleolar RNA SNORA40 Neighboring gene small nucleolar RNA SNORA8 Neighboring gene small nucleolar RNA SNORA32 Neighboring gene small nucleolar RNA, H/ACA box 18 Neighboring gene small nucleolar RNA, C/D box 5 Neighboring gene small nucleolar RNA, H/ACA box 25B Neighboring gene small nucleolar RNA, H/ACA box 1B Neighboring gene small nucleolar RNA, C/D box 6 Neighboring gene centrosomal protein 295 Neighboring gene small nucleolar RNA U2-30 Neighboring gene small nucleolar RNA U2-19

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. TFIIB-related factors in RNA polymerase I transcription. Knutson BA, et al. Biochim Biophys Acta, 2013 Mar-Apr. PMID 22960599, Free PMC Article
  2. RNA polymerase I activity is regulated at multiple steps in the transcription cycle: recent insights into factors that influence transcription elongation. Schneider DA. Gene, 2012 Feb 10. PMID 21893173, Free PMC Article
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
  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 IEA
Inferred from Electronic Annotation
more info
  
enables identical protein binding IEA
Inferred from Electronic Annotation
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
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 IEA
Inferred from Electronic Annotation
more info
  
located_in centriolar satellite ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in mitotic spindle IEA
Inferred from Electronic Annotation
more info
  
located_in mitotic spindle ISO
Inferred from Sequence Orthology
more info
  
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  

General protein information

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

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_001393862.1 → NP_001380791.1  TATA box-binding protein-associated factor RNA polymerase I subunit D

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000008
    UniProtKB/Swiss-Prot
    Q5M948
    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0
    Related
    ENSRNOP00000068730.3, ENSRNOT00000078161.3
    Conserved Domains (1) summary
    pfam15333
    Location:32 → 240
    TAF1D; TATA box-binding protein-associated factor 1D

RNA

  1. NR_172024.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000008

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_086026.1 Reference GRCr8

    Range
    20427894..20438046
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063265684.1 → XP_063121754.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X1

    UniProtKB/TrEMBL
    A6JNC6
    Related
    ENSRNOP00000096126.2, ENSRNOT00000096680.2

  2. XM_063265686.1 → XP_063121756.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  3. XM_063265701.1 → XP_063121771.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  4. XM_063265695.1 → XP_063121765.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  5. XM_063265698.1 → XP_063121768.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  6. XM_063265702.1 → XP_063121772.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  7. XM_063265697.1 → XP_063121767.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  8. XM_063265691.1 → XP_063121761.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  9. XM_063265699.1 → XP_063121769.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  10. XM_063265704.1 → XP_063121774.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  11. XM_063265688.1 → XP_063121758.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  12. XM_063265696.1 → XP_063121766.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  13. XM_063265705.1 → XP_063121775.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  14. XM_063265700.1 → XP_063121770.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  15. XM_063265690.1 → XP_063121760.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  16. XM_063265692.1 → XP_063121762.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  17. XM_063265693.1 → XP_063121763.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  18. XM_063265689.1 → XP_063121759.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  19. XM_063265706.1 → XP_063121776.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  20. XM_063265694.1 → XP_063121764.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0

  21. XM_063265685.1 → XP_063121755.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X1

    UniProtKB/TrEMBL
    A6JNC6
    Related
    ENSRNOP00000014605.6, ENSRNOT00000014605.8

  22. XM_063265687.1 → XP_063121757.1  TATA box-binding protein-associated factor RNA polymerase I subunit D isoform X2

    UniProtKB/TrEMBL
    A0A8I6ANJ9, A6JNC0
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5M948.1 GenPept UniProtKB/Swiss-Prot:Q5M948

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