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TAF1A TATA-box binding protein associated factor, RNA polymerase I subunit A [ Homo sapiens (human) ]

Gene ID: 9015, updated on 2-Nov-2024

Summary

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Official Symbol
TAF1Aprovided by HGNC
Official Full Name
TATA-box binding protein associated factor, RNA polymerase I subunit Aprovided by HGNC
Primary source
HGNC:HGNC:11532
See related
Ensembl:ENSG00000143498 MIM:604903; AllianceGenome:HGNC:11532
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SL1; RAFI48; TAFI48; MGC:17061
Summary
This gene encodes a subunit of the RNA polymerase I complex, Selectivity Factor I (SLI). The encoded protein is a TATA box-binding protein-associated factor that plays a role in the assembly of the RNA polymerase I preinitiation complex. Alternate splicing results in multiple transcript variants encoding multiple isoforms.[provided by RefSeq, Jan 2011]
Expression
Ubiquitous expression in testis (RPKM 2.3), lymph node (RPKM 1.9) and 24 other tissues See more
Orthologs
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Genomic context

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See TAF1A in Genome Data Viewer
Location:
1q41
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (222554105..222589933, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (221788155..221823679, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (222731244..222763275, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124904519 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:222699854-222700038 Neighboring gene HHIP like 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2576 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:222763242-222763775 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:222763776-222764308 Neighboring gene TAF1A antisense RNA 1 Neighboring gene H3K27me3-DHS negatively-acting regulatory element H1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:222791257-222792139 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2577 Neighboring gene prefoldin subunit 5-like Neighboring gene MIA SH3 domain ER export factor 3 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancers GRCh37_chr1:222816645-222817522 and GRCh37_chr1:222817523-222818398 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2581 Neighboring gene axin interactor, dorsalization associated Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_5183 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:222885601-222886515

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues 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

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Related articles in PubMed

  1. TBP-associated factors interact with DNA and govern species specificity of RNA polymerase I transcription. Rudloff U, et al. EMBO J, 1994 Jun 1. PMID 8013460, Free PMC Article
  2. The carboxyl-terminus directs TAF(I)48 to the nucleus and nucleolus and associates with multiple nuclear import receptors. Dynes JL, et al. J Biochem, 2004 Mar. PMID 15113842
  3. Identification of a domain within human TAF(I)48, a subunit of Selectivity Factor 1, that interacts with helix 2 of TBP. Xu S, et al. Gene, 2004 Sep 1. PMID 15315821
  4. The hepatitis delta virus RNA genome interacts with the human RNA polymerases I and III. Greco-Stewart VS, et al. Virology, 2009 Mar 30. PMID 19246067
  5. TNFAIP8 regulates cisplatin resistance through TAF-Iα and promotes malignant progression of esophageal cancer. Zhang DL, et al. Eur Rev Med Pharmacol Sci, 2020 May. PMID 32432789

See all (42) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. TNFAIP8 regulates cisplatin resistance through TAF-Ialpha and promotes malignant progression of esophageal cancer.
    Title: TNFAIP8 regulates cisplatin resistance through TAF-Iα and promotes malignant progression of esophageal cancer.
  2. The authors demonstrate the interaction of both RNA polymerase I and III with hepatitis delta virus RNA, both in vitro and in human cells.
    Title: The hepatitis delta virus RNA genome interacts with the human RNA polymerases I and III.
  3. This study identifies the first nuclear import sequence within the TBP-Associated Factor subunits of Selectivity Factor 1.
    Title: The carboxyl-terminus directs TAF(I)48 to the nucleus and nucleolus and associates with multiple nuclear import receptors.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

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 GOA

Function Evidence Code Pubs
enables DNA 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 transcription by RNA polymerase I IEA
Inferred from Electronic Annotation
more info
  
involved_in transcription by RNA polymerase II TAS
Traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
part_of RNA polymerase transcription factor SL1 complex IDA
Inferred from Direct Assay
more info
 PubMed 
located_in microtubule cytoskeleton IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm IDA
Inferred from Direct Assay
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 A
Names
RNA polymerase I-specific TBP-associated factor 48 kDa
SL1, 48kD subunit
TATA box binding protein (TBP)-associated factor, RNA polymerase I, A, 48kD
TATA box binding protein (TBP)-associated factor, RNA polymerase I, A, 48kDa
TATA box-binding protein-associated factor 1A
TATA-box binding protein associated factor, RNA polymerase I, A
TBP-associated factor 1A
transcription factor SL1
transcription initiation factor SL1/TIF-IB subunit A

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_001201536.1 → NP_001188465.1  TATA box-binding protein-associated factor RNA polymerase I subunit A isoform 1

    See identical proteins and their annotated locations for NP_001188465.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 3' UTR compared to variant 1. Both variants 1 and 3 encode the same isoform (1).
    Source sequence(s)
    AK290970, AK299536, AL592148
    Consensus CDS
    CCDS1531.1
    UniProtKB/Swiss-Prot
    B2RDZ8, D3DTB7, Q15573, Q9NWA1
    UniProtKB/TrEMBL
    A8K4K5
    Related
    ENSP00000339976.4, ENST00000350027.8
    Conserved Domains (1) summary
    pfam14929
    Location:63 → 423
    TAF1_subA; TAF RNA Polymerase I subunit A

  2. NM_005681.4 → NP_005672.1  TATA box-binding protein-associated factor RNA polymerase I subunit A isoform 1

    See identical proteins and their annotated locations for NP_005672.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AK299536, AL592148, BC013808, CN479053
    Consensus CDS
    CCDS1531.1
    UniProtKB/Swiss-Prot
    B2RDZ8, D3DTB7, Q15573, Q9NWA1
    UniProtKB/TrEMBL
    A8K4K5
    Related
    ENSP00000327072.6, ENST00000352967.9
    Conserved Domains (1) summary
    pfam14929
    Location:63 → 423
    TAF1_subA; TAF RNA Polymerase I subunit A

  3. NM_139352.2 → NP_647603.1  TATA box-binding protein-associated factor RNA polymerase I subunit A isoform 2

    See identical proteins and their annotated locations for NP_647603.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR and lacks an in-frame exon in the 5' coding region, compared to variant 1. These differences causes translation initiation at a downstream AUG and result in isoform (2) which has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AK001054, AK299536, AL592148
    Consensus CDS
    CCDS1532.1
    UniProtKB/Swiss-Prot
    Q15573
    UniProtKB/TrEMBL
    B4DS21
    Related
    ENSP00000355856.1, ENST00000366890.5
    Conserved Domains (1) summary
    pfam14929
    Location:2 → 329
    TAF1_subA; TAF RNA Polymerase I subunit A

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    222554105..222589933 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006711612.2 → XP_006711675.1  TATA box-binding protein-associated factor RNA polymerase I subunit A isoform X1

    UniProtKB/TrEMBL
    A8K4K5
    Conserved Domains (1) summary
    pfam14929
    Location:8 → 405
    TAF1_subA; TAF RNA Polymerase I subunit A

  2. XM_047433596.1 → XP_047289552.1  TATA box-binding protein-associated factor RNA polymerase I subunit A isoform X2

  3. XM_047433593.1 → XP_047289549.1  TATA box-binding protein-associated factor RNA polymerase I subunit A isoform X2

  4. XM_047433599.1 → XP_047289555.1  TATA box-binding protein-associated factor RNA polymerase I subunit A isoform X3

    Related
    ENST00000465263.1

  5. XM_047433601.1 → XP_047289557.1  TATA box-binding protein-associated factor RNA polymerase I subunit A isoform X5

    Related
    ENSP00000375755.2, ENST00000391883.2

  6. XM_005273343.5 → XP_005273400.1  TATA box-binding protein-associated factor RNA polymerase I subunit A isoform X4

    See identical proteins and their annotated locations for XP_005273400.1

    UniProtKB/TrEMBL
    B4DS21, Q5JRA7
    Conserved Domains (1) summary
    pfam14929
    Location:8 → 303
    TAF1_subA; TAF RNA Polymerase I subunit A

RNA

  1. XR_007064852.1 RNA Sequence

  2. XR_007064851.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    221788155..221823679 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054339489.1 → XP_054195464.1  TATA box-binding protein-associated factor RNA polymerase I subunit A isoform X1

  2. XM_054339488.1 → XP_054195463.1  TATA box-binding protein-associated factor RNA polymerase I subunit A isoform X1

  3. XM_054339491.1 → XP_054195466.1  TATA box-binding protein-associated factor RNA polymerase I subunit A isoform X2

  4. XM_054339490.1 → XP_054195465.1  TATA box-binding protein-associated factor RNA polymerase I subunit A isoform X2

  5. XM_054339492.1 → XP_054195467.1  TATA box-binding protein-associated factor RNA polymerase I subunit A isoform X3

  6. XM_054339493.1 → XP_054195468.1  TATA box-binding protein-associated factor RNA polymerase I subunit A isoform X4

    UniProtKB/TrEMBL
    B4DS21

  7. XM_054339494.1 → XP_054195469.1  TATA box-binding protein-associated factor RNA polymerase I subunit A isoform X5

RNA

  1. XR_008486202.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q15573.1 GenPept UniProtKB/Swiss-Prot:Q15573

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