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TAF1C TATA-box binding protein associated factor, RNA polymerase I subunit C [ Homo sapiens (human) ]

Gene ID: 9013, updated on 18-Sep-2018

Summary

Official Symbol
TAF1Cprovided by HGNC
Official Full Name
TATA-box binding protein associated factor, RNA polymerase I subunit Cprovided by HGNC
Primary source
HGNC:HGNC:11534
See related
Ensembl:ENSG00000103168 MIM:604905; Vega:OTTHUMG00000176665
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; TAFI95; TAFI110; MGC:39976
Summary
Initiation of transcription by RNA polymerase I requires the formation of a complex composed of the TATA-binding protein (TBP) and three TBP-associated factors (TAFs) specific for RNA polymerase I. This complex, known as SL1, binds to the core promoter of ribosomal RNA genes to position the polymerase properly and acts as a channel for regulatory signals. This gene encodes the largest SL1-specific TAF. Multiple alternatively spliced transcript variants encoding different isoforms have been identified. [provided by RefSeq, Jul 2011]
Expression
Ubiquitous expression in spleen (RPKM 19.0), ovary (RPKM 12.6) and 25 other tissues See more
Orthologs

Genomic context

See TAF1C in Genome Data Viewer
Location:
16q24.1
Exon count:
17
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 16 NC_000016.10 (84177847..84187070, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (84211453..84220676, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene polo like kinase 1 pseudogene Neighboring gene hydroxysteroid dehydrogenase like 1 Neighboring gene dynein axonemal assembly factor 1 Neighboring gene splicing factor proline/glutamine-rich Neighboring gene adenosine deaminase domain containing 2 Neighboring gene potassium voltage-gated channel modifier subfamily G member 4

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 Jun 15 11:32:44 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association for abdominal subcutaneous and visceral adipose reveals a novel locus for visceral fat in women.
NHGRI GWA Catalog
Individual common variants exert weak effects on the risk for autism spectrum disorderspi.
NHGRI GWA Catalog

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA polymerase I CORE element sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
fibrillar center IDA
Inferred from Direct Assay
more info
 
nucleolus IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
TATA box-binding protein-associated factor RNA polymerase I subunit C
Names
RNA polymerase I-specific TBP-associated factor 110 kDa
SL1, 110kD subunit
TATA box binding protein (TBP)-associated factor, RNA polymerase I, C, 110kD
TATA box binding protein (TBP)-associated factor, RNA polymerase I, C, 110kDa
TATA box-binding protein-associated factor 1C
TATA-box binding protein associated factor, RNA polymerase I, C
TBP-associated factor 1C
transcription factor SL1
transcription initiation factor SL1/TIF-IB subunit C

NCBI Reference Sequences (RefSeq)

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_001243156.1NP_001230085.1  TATA box-binding protein-associated factor RNA polymerase I subunit C isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an internal segment in the CDS, compared to variant 1. The resulting isoform (3) is shorter by lacking of an internal segment, compared to isoform 1.
    Source sequence(s)
    AC009123, AK299060, AK299347, CA397963, DC377529
    Consensus CDS
    CCDS58489.1
    UniProtKB/Swiss-Prot
    Q15572
    Related
    ENSP00000455933.1, OTTHUMP00000254735, ENST00000566732.5, OTTHUMT00000433047
  2. NM_001243157.1NP_001230086.1  TATA box-binding protein-associated factor RNA polymerase I subunit C isoform 4

    See identical proteins and their annotated locations for NP_001230086.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks two internal exons and an internal segment, and has a downstream AUG start codon, compared to variant 1. The resulting isoform (4) is much shorter at the N-terminus, compared to isoform 1. Variants 4 and 5 encode the same isoform 4.
    Source sequence(s)
    AC009123, AK299060, CA397963, DC377529
    Consensus CDS
    CCDS58488.1
    UniProtKB/Swiss-Prot
    Q15572
    Related
    ENSP00000437900.2, ENST00000541676.5
  3. NM_001243158.1NP_001230087.1  TATA box-binding protein-associated factor RNA polymerase I subunit C isoform 4

    See identical proteins and their annotated locations for NP_001230087.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) lacks two internal segments and four consecutive exons, and has a downstream AUG start codon, compared to variant 1. The resulting isoform (4) has a much shorter N-terminus, compared to isoform 1. Variants 4 and 5 encode the same isoform 4.
    Source sequence(s)
    AC009123, AK299347, AK315982, CA397963, DC377529
    Consensus CDS
    CCDS58488.1
    UniProtKB/Swiss-Prot
    Q15572
    Related
    ENSP00000455247.1, OTTHUMP00000254737, ENST00000570117.5, OTTHUMT00000433050
  4. NM_001243159.1NP_001230088.1  TATA box-binding protein-associated factor RNA polymerase I subunit C isoform 5

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) lacks two internal segments but has a downstream additional segment, and has a downstream AUG start codon, compared to variant 1. The resulting isoform 5 is much shorter at the N-terminus, compared to isoform 1.
    Source sequence(s)
    AC009123, AK097031, AK304261, CA397963, DC377529
    UniProtKB/Swiss-Prot
    Q15572
    UniProtKB/TrEMBL
    B3KUE8
  5. NM_001243160.1NP_001230089.1  TATA box-binding protein-associated factor RNA polymerase I subunit C isoform 6

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) differs in several regions and has a downstream AUG start codon, compared to variant 1. The resulting isoform (6) is much shorter at the N-terminus and lacks an internal amino acid 'G', compared to isoform 1.
    Source sequence(s)
    AC009123, AK097031, CA397963, DC377529
    UniProtKB/TrEMBL
    B3KUE8
  6. NM_005679.3NP_005670.3  TATA box-binding protein-associated factor RNA polymerase I subunit C isoform 1

    See identical proteins and their annotated locations for NP_005670.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AC009123, AK299060, CA397963, DC376588, DC377529, L39059
    Consensus CDS
    CCDS32496.1
    UniProtKB/Swiss-Prot
    Q15572
    Related
    ENSP00000455265.1, OTTHUMP00000254733, ENST00000567759.5, OTTHUMT00000433045
  7. NM_139353.2NP_647610.2  TATA box-binding protein-associated factor RNA polymerase I subunit C isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) has alternate splice sites in three regions, compared to variant 1. The resulting isoform (2) has a shorter N-terminus, lacks an internal segment and an internal amino acid 'G', compared to isoform 1.
    Source sequence(s)
    AC009123, AK299060, BC028131, CA397963, DC377529
    Consensus CDS
    CCDS45535.1
    UniProtKB/Swiss-Prot
    Q15572
    Related
    ENSP00000345305.6, OTTHUMP00000254731, ENST00000341690.10, OTTHUMT00000433042

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p12 Primary Assembly

    Range
    84177847..84187070 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017023847.1XP_016879336.1  TATA box-binding protein-associated factor RNA polymerase I subunit C isoform X6

  2. XM_005256227.3XP_005256284.1  TATA box-binding protein-associated factor RNA polymerase I subunit C isoform X5

    See identical proteins and their annotated locations for XP_005256284.1

  3. XM_017023846.1XP_016879335.1  TATA box-binding protein-associated factor RNA polymerase I subunit C isoform X5

  4. XM_017023845.1XP_016879334.1  TATA box-binding protein-associated factor RNA polymerase I subunit C isoform X4

    UniProtKB/Swiss-Prot
    Q15572
  5. XM_005256226.3XP_005256283.1  TATA box-binding protein-associated factor RNA polymerase I subunit C isoform X2

    See identical proteins and their annotated locations for XP_005256283.1

    UniProtKB/Swiss-Prot
    Q15572
  6. XM_006721326.3XP_006721389.1  TATA box-binding protein-associated factor RNA polymerase I subunit C isoform X3

  7. XM_006721325.3XP_006721388.1  TATA box-binding protein-associated factor RNA polymerase I subunit C isoform X1

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