Free for academic non-profit institutions. Other users need a Commercial license

Aliases for TAF1C Gene

Aliases for TAF1C Gene

  • TATA-Box Binding Protein Associated Factor, RNA Polymerase I Subunit C 2 3 5
  • TATA Box Binding Protein (TBP)-Associated Factor, RNA Polymerase I, C, 110kDa 2 3
  • TATA Box Binding Protein (TBP)-Associated Factor, RNA Polymerase I, C, 110kD 2 3
  • RNA Polymerase I-Specific TBP-Associated Factor 110 KDa 3 4
  • Transcription Initiation Factor SL1/TIF-IB Subunit C 3 4
  • TATA Box-Binding Protein-Associated Factor 1C 3 4
  • TBP-Associated Factor 1C 3 4
  • TAFI110 3 4
  • TATA Box-Binding Protein-Associated Factor RNA Polymerase I Subunit C 3
  • TATA-Box Binding Protein Associated Factor, RNA Polymerase I, C 3
  • Transcription Factor SL1 3
  • SL1, 110kD Subunit 3
  • MGC:39976 3
  • TAFI95 3
  • SL1 3

External Ids for TAF1C Gene

Previous GeneCards Identifiers for TAF1C Gene

  • GC16M075062
  • GC16M085178
  • GC16M083950
  • GC16M083991
  • GC16M082768
  • GC16M084211
  • GC16M069965

Summaries for TAF1C Gene

Entrez Gene Summary for TAF1C Gene

  • 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]

GeneCards Summary for TAF1C Gene

TAF1C (TATA-Box Binding Protein Associated Factor, RNA Polymerase I Subunit C) is a Protein Coding gene. Among its related pathways are PEDF Induced Signaling and GPCR Pathway.

UniProtKB/Swiss-Prot for TAF1C Gene

  • Component of the transcription factor SL1/TIF-IB complex, which is involved in the assembly of the PIC (preinitiation complex) during RNA polymerase I-dependent transcription. The rate of PIC formation probably is primarily dependent on the rate of association of SL1/TIF-IB with the rDNA promoter. SL1/TIF-IB is involved in stabilization of nucleolar transcription factor 1/UBTF on rDNA. Formation of SL1/TIF-IB excludes the association of TBP with TFIID subunits. Recruits RNA polymerase I to the rRNA gene promoter via interaction with RRN3.

Gene Wiki entry for TAF1C Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TAF1C Gene

Genomics for TAF1C Gene

Regulatory Elements for TAF1C Gene

Enhancers for TAF1C Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH16G084175 1.6 FANTOM5 Ensembl ENCODE 44.1 +10.0 9952 4.1 PKNOX1 ATF1 FOXA2 ARID4B SIN3A FEZF1 ZNF2 ZNF48 ZNF121 SLC30A9 TAF1C DNAAF1 OSGIN1 COTL1 HSDL1 GC16P084175 PIR55963
GH16G084183 1.1 ENCODE 28 +1.4 1429 4.1 PKNOX1 MLX CREB3L1 AGO1 ZFP64 ARID4B SIN3A DMAP1 SLC30A9 ZNF766 TAF1C ENSG00000261243 ENSG00000250685 KLHL36 ADAD2 ZDHHC7 HSDL1 PIR55963
GH16G084082 1.4 Ensembl ENCODE 19.3 +104.2 104151 1.4 HNRNPUL1 HDGF FOXA2 PKNOX1 CREB3L1 MLX AGO1 ZFP64 ARID4B SIN3A TAF1C ENSG00000261243 KLHL36 SLC38A8 RNA5SP432 HSDL1 DNAAF1 ADAD2 CRISPLD2 ENSG00000260859
GH16G084047 0.8 dbSUPER 21.6 +138.1 138138 2.3 FOXA2 ZFP64 ARID4B RAD21 SCRT2 HMG20B SP5 REST MAFF ZNF580 TAF1C NECAB2 OSGIN1 ADAD2 DNAAF1 HSDL1 KCNG4 MBTPS1 SLC38A8 ENSG00000274677
GH16G084085 0.8 Ensembl 21 +101.0 100970 0.6 PKNOX1 KLF1 ESRRA RAD21 ZBTB7B GATA3 CTBP1 EED FOS FOSL2 TAF1C ADAD2 HSDL1 DNAAF1 OSGIN1 SLC38A8 RNA5SP432 ENSG00000274677
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TAF1C on UCSC Golden Path with GeneCards custom track

Promoters for TAF1C Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000088761 270 1201 PKNOX1 MLX CREB3L1 AGO1 ZFP64 ARID4B SIN3A DMAP1 SLC30A9 ZNF766

Genomic Location for TAF1C Gene

Chromosome:
16
Start:
84,177,847 bp from pter
End:
84,187,070 bp from pter
Size:
9,224 bases
Orientation:
Minus strand

Genomic View for TAF1C Gene

Genes around TAF1C on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TAF1C Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TAF1C Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TAF1C Gene

Proteins for TAF1C Gene

  • Protein details for TAF1C Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q15572-TAF1C_HUMAN
    Recommended name:
    TATA box-binding protein-associated factor RNA polymerase I subunit C
    Protein Accession:
    Q15572
    Secondary Accessions:
    • B7Z5K5
    • B7Z5S4
    • B7Z908
    • B7Z9L7
    • Q59F67
    • Q8N6V3

    Protein attributes for TAF1C Gene

    Size:
    869 amino acids
    Molecular mass:
    95213 Da
    Quaternary structure:
    • Component of the transcription factor SL1/TIF-IB complex, composed of TBP and at least TAF1A, TAF1B, TAF1C and TAF1D. In the complex interacts directly with TBP, TAF1A and TAF1B. Interaction of the SL1/TIF-IB subunits with TBP excludes interaction of TBP with the transcription factor IID (TFIID) subunits. Interacts with MYC and RRN3. Interacts with p53/TP53; the interaction prevents the association of SL1/TIF-IB with UBTF and represses RNA polymerase I transcription.
    SequenceCaution:
    • Sequence=BAD92831.1; Type=Miscellaneous discrepancy; Note=Probable cloning artifact.; Evidence={ECO:0000305};

    Alternative splice isoforms for TAF1C Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TAF1C Gene

Post-translational modifications for TAF1C Gene

  • Ubiquitination at posLast=124124, Lys258, Lys323, Lys409, isoforms=2, 4, 5, 6434, and posLast=645645
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for TAF1C Gene

Domains & Families for TAF1C Gene

Protein Domains for TAF1C Gene

Suggested Antigen Peptide Sequences for TAF1C Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with TAF1C: view

No data available for Gene Families and UniProtKB/Swiss-Prot for TAF1C Gene

Function for TAF1C Gene

Molecular function for TAF1C Gene

UniProtKB/Swiss-Prot Function:
Component of the transcription factor SL1/TIF-IB complex, which is involved in the assembly of the PIC (preinitiation complex) during RNA polymerase I-dependent transcription. The rate of PIC formation probably is primarily dependent on the rate of association of SL1/TIF-IB with the rDNA promoter. SL1/TIF-IB is involved in stabilization of nucleolar transcription factor 1/UBTF on rDNA. Formation of SL1/TIF-IB excludes the association of TBP with TFIID subunits. Recruits RNA polymerase I to the rRNA gene promoter via interaction with RRN3.

Gene Ontology (GO) - Molecular Function for TAF1C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001164 RNA polymerase I CORE element sequence-specific DNA binding IDA 22368283
GO:0003677 DNA binding IEA --
GO:0005515 protein binding IPI 17268553
genes like me logo Genes that share ontologies with TAF1C: view
genes like me logo Genes that share phenotypes with TAF1C: view

Animal Model Products

miRNA for TAF1C Gene

miRTarBase miRNAs that target TAF1C

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TAF1C Gene

Localization for TAF1C Gene

Subcellular locations from UniProtKB/Swiss-Prot for TAF1C Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TAF1C gene
Compartment Confidence
nucleus 5
plasma membrane 2
cytosol 2

Gene Ontology (GO) - Cellular Components for TAF1C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000120 RNA polymerase I transcription factor complex IBA --
GO:0001650 fibrillar center IDA --
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
GO:0005730 nucleolus IDA 12498690
genes like me logo Genes that share ontologies with TAF1C: view

Pathways & Interactions for TAF1C Gene

genes like me logo Genes that share pathways with TAF1C: view

Gene Ontology (GO) - Biological Process for TAF1C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006356 regulation of transcription from RNA polymerase I promoter NAS 12498690
GO:0006360 transcription from RNA polymerase I promoter TAS 7801123
GO:0006361 transcription initiation from RNA polymerase I promoter TAS --
genes like me logo Genes that share ontologies with TAF1C: view

No data available for SIGNOR curated interactions for TAF1C Gene

Drugs & Compounds for TAF1C Gene

(1) Additional Compounds for TAF1C Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with TAF1C: view

Transcripts for TAF1C Gene

Unigene Clusters for TAF1C Gene

TATA box binding protein (TBP)-associated factor, RNA polymerase I, C, 110kDa:
Representative Sequences:

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for TAF1C Gene

ExUns: 1a · 1b · 1c · 1d · 1e · 1f ^ 2 ^ 3a · 3b ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b · 6c · 6d ^ 7a · 7b ^ 8a · 8b · 8c · 8d ^ 9 ^ 10 ^ 11a ·
SP1: - - - - - - -
SP2: - - -
SP3: - - - - - - - - - - - -
SP4: - -
SP5: - - -
SP6:
SP7: - - - -
SP8: -
SP9: - -
SP10: -
SP11: -
SP12: - - - - - - - - - - - -
SP13: - - - - - - - -
SP14:
SP15:
SP16:
SP17:
SP18: -

ExUns: 11b · 11c ^ 12 ^ 13a · 13b ^ 14a · 14b ^ 15 ^ 16 ^ 17a · 17b · 17c ^ 18a · 18b
SP1: - - -
SP2:
SP3: -
SP4:
SP5:
SP6: -
SP7:
SP8:
SP9:
SP10: -
SP11: -
SP12:
SP13:
SP14: - - - -
SP15:
SP16:
SP17:
SP18:

Relevant External Links for TAF1C Gene

GeneLoc Exon Structure for
TAF1C
ECgene alternative splicing isoforms for
TAF1C

Expression for TAF1C Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TAF1C Gene

Protein differential expression in normal tissues from HIPED for TAF1C Gene

This gene is overexpressed in Liver (39.7) and Brain (23.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for TAF1C Gene



Protein tissue co-expression partners for TAF1C Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TAF1C Gene:

TAF1C

SOURCE GeneReport for Unigene cluster for TAF1C Gene:

Hs.153022

Evidence on tissue expression from TISSUES for TAF1C Gene

  • Spleen(4.3)
  • Nervous system(4.3)
  • Lung(4.2)
genes like me logo Genes that share expression patterns with TAF1C: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for TAF1C Gene

Orthologs for TAF1C Gene

This gene was present in the common ancestor of chordates.

Orthologs for TAF1C Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TAF1C 34 35
  • 99.09 (n)
cow
(Bos Taurus)
Mammalia TAF1C 34 35
  • 79.79 (n)
dog
(Canis familiaris)
Mammalia TAF1C 34 35
  • 79.34 (n)
rat
(Rattus norvegicus)
Mammalia Taf1c 34
  • 74.83 (n)
mouse
(Mus musculus)
Mammalia Taf1c 34 16 35
  • 73.87 (n)
oppossum
(Monodelphis domestica)
Mammalia TAF1C 35
  • 50 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TAF1C 35
  • 32 (a)
OneToOne
chicken
(Gallus gallus)
Aves LOC101750393 34
  • 54.33 (n)
TAF1C 35
  • 35 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 30 (a)
OneToMany
-- 35
  • 30 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100496040 34
  • 45.83 (n)
zebrafish
(Danio rerio)
Actinopterygii TAF1C 35
  • 23 (a)
OneToOne
Species where no ortholog for TAF1C was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for TAF1C Gene

ENSEMBL:
Gene Tree for TAF1C (if available)
TreeFam:
Gene Tree for TAF1C (if available)

Paralogs for TAF1C Gene

No data available for Paralogs for TAF1C Gene

Variants for TAF1C Gene

Sequence variations from dbSNP and Humsavar for TAF1C Gene

SNP ID Clin Chr 16 pos Sequence Context AA Info Type
rs769877978 Likely benign 84,177,745(+) AGCGC(C/T)GCCAC nc-transcript-variant, downstream-variant-500B, reference, synonymous-codon
rs2288024 Uncertain significance 84,177,859(+) ATATG(C/T)AGCAT nc-transcript-variant, utr-variant-3-prime
rs4150186 Uncertain significance 84,177,908(-) GTTAA(A/C/G)ATGTT nc-transcript-variant, utr-variant-3-prime
rs552601600 Uncertain significance 84,177,791(+) GCCAA(G/T)CTCTG nc-transcript-variant, downstream-variant-500B, reference, missense
rs757455850 Uncertain significance 84,177,783(+) CCAGC(C/T)CAGCC nc-transcript-variant, downstream-variant-500B, reference, missense

Structural Variations from Database of Genomic Variants (DGV) for TAF1C Gene

Variant ID Type Subtype PubMed ID
esv2761930 CNV gain 21179565
esv3639412 CNV loss 21293372
esv3639413 CNV loss 21293372
esv3639414 CNV loss 21293372
nsv1059227 CNV loss 25217958
nsv1065790 CNV loss 25217958
nsv457597 CNV loss 19166990
nsv483044 CNV gain 15286789
nsv518331 CNV loss 19592680
nsv523437 CNV loss 19592680
nsv573422 CNV loss 21841781
nsv573423 CNV loss 21841781
nsv573424 CNV loss 21841781
nsv833309 CNV loss 17160897

Variation tolerance for TAF1C Gene

Residual Variation Intolerance Score: 97.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.14; 84.66% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TAF1C Gene

Human Gene Mutation Database (HGMD)
TAF1C
SNPedia medical, phenotypic, and genealogical associations of SNPs for
TAF1C

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TAF1C Gene

Disorders for TAF1C Gene

Relevant External Links for TAF1C

Genetic Association Database (GAD)
TAF1C
Human Genome Epidemiology (HuGE) Navigator
TAF1C
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TAF1C

No disorders were found for TAF1C Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TAF1C Gene

Publications for TAF1C Gene

  1. Reconstitution of transcription factor SL1: exclusive binding of TBP by SL1 or TFIID subunits. (PMID: 7801123) Comai L. … Tjian R. (Science 1994) 2 3 4 64
  2. A genome-wide scan for common alleles affecting risk for autism. (PMID: 20663923) Anney R. … Hallmayer J. (Hum. Mol. Genet. 2010) 3 46 64
  3. Investigation of genetic susceptibility factors for human longevity - a targeted nonsynonymous SNP study. (PMID: 20800603) Flachsbart F. … Nebel A. (Mutat. Res. 2010) 3 46 64
  4. A novel TBP-associated factor of SL1 functions in RNA polymerase I transcription. (PMID: 17318177) Gorski J.J. … Zomerdijk J.C.B.M. (EMBO J. 2007) 3 22 64
  5. c-Myc binds to human ribosomal DNA and stimulates transcription of rRNA genes by RNA polymerase I. (PMID: 15723054) Grandori C. … White R.J. (Nat. Cell Biol. 2005) 3 4 64

Products for TAF1C Gene

Sources for TAF1C Gene

Content
Loading form....