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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 RNA Polymerase II Transcription Initiation And Promoter Clearance and Apoptotic Pathways in Synovial Fibroblasts.

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

Additional gene information 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
GH16H084175 1.6 FANTOM5 Ensembl ENCODE 52.2 +10.0 9952 4.1 PKNOX1 ATF1 FOXA2 ARID4B SIN3A FEZF1 ZNF2 ZNF121 SLC30A9 ZNF207 TAF1C DNAAF1 MBTPS1 ENSG00000261243 OSGIN1 COTL1 HSDL1 PIR55963 GC16P084175
GH16H083967 0.9 dbSUPER 65.7 +219.0 219009 0.8 PKNOX1 ZNF493 ZNF133 SIN3A YBX1 ZBTB7B ZNF207 ZNF143 MCM3 TSHZ1 ENSG00000261243 TAF1C KLHL36 MBTPS1 CRISPLD2 TLDC1 ENSG00000260859 HSDL1 LOC654780 PIR54401
GH16H085134 1.6 Ensembl ENCODE dbSUPER 31.9 -949.5 -949549 3.7 PKNOX1 MLX ARNT ZFP64 ARID4B DMAP1 YY1 SLC30A9 PAF1 SP5 TAF1C ENSG00000261243 KLHL36 RN7SL381P ENSG00000260859 ENSG00000270184 ZDHHC7 RNU1-103P CRISPLD2 FAM92B
GH16H085025 1.7 FANTOM5 ENCODE dbSUPER 26.9 -841.0 -841040 5.4 HDGF PKNOX1 MLX ARID4B SIN3A DMAP1 YY1 SLC30A9 ZNF143 ZNF207 ENSG00000261243 TAF1C KLHL36 KIAA0513 RN7SL381P ZDHHC7 ENSG00000270184 RNU1-103P HSDL1 TLDC1
GH16H084183 1.1 ENCODE 41.2 +1.4 1429 4.1 PKNOX1 MLX ZFP64 ARID4B SIN3A DMAP1 SLC30A9 ZNF766 ZNF207 ZNF143 TAF1C KLHL36 ENSG00000261243 LOC654780 ENSG00000260300 ADAD2 ZDHHC7 TLDC1 HSDL1 PIR55963
- 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 ZFP64 ARID4B SIN3A DMAP1 SLC30A9 ZNF766 ZNF207 ZNF143

Genomic Locations for TAF1C Gene

Genomic Locations for TAF1C Gene
chr16:84,177,847-84,187,070
(GRCh38/hg38)
Size:
9,224 bases
Orientation:
Minus strand
chr16:84,211,458-84,220,669
(GRCh37/hg19)

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 Lys124, Lys258, posLast=323323, posLast=409409, posLast=434434, and posLast=645645
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for TAF1C Gene

Domains & Families for TAF1C Gene

Gene Families for TAF1C Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

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 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.

Phenotypes From GWAS Catalog for TAF1C Gene

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

miRNA for TAF1C Gene

miRTarBase miRNAs that target TAF1C

Clone 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

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoli fibrillar center (3)
See all subcellular structures

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:

Clone 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

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 33 34
  • 99.09 (n)
cow
(Bos Taurus)
Mammalia TAF1C 33 34
  • 79.79 (n)
dog
(Canis familiaris)
Mammalia TAF1C 33 34
  • 79.34 (n)
rat
(Rattus norvegicus)
Mammalia Taf1c 33
  • 74.83 (n)
mouse
(Mus musculus)
Mammalia Taf1c 33 16 34
  • 73.87 (n)
oppossum
(Monodelphis domestica)
Mammalia TAF1C 34
  • 50 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TAF1C 34
  • 32 (a)
OneToOne
chicken
(Gallus gallus)
Aves LOC101750393 33
  • 54.33 (n)
TAF1C 34
  • 35 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 30 (a)
OneToMany
-- 34
  • 30 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100496040 33
  • 45.83 (n)
zebrafish
(Danio rerio)
Actinopterygii TAF1C 34
  • 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
nsv833309 CNV loss 17160897
nsv573424 CNV loss 21841781
nsv573423 CNV loss 21841781
nsv573422 CNV loss 21841781
nsv523437 CNV loss 19592680
nsv518331 CNV loss 19592680
nsv483044 CNV gain 15286789
nsv457597 CNV loss 19166990
nsv1065790 CNV loss 25217958
nsv1059227 CNV loss 25217958
esv3639414 CNV loss 21293372
esv3639413 CNV loss 21293372
esv3639412 CNV loss 21293372
esv2761930 CNV gain 21179565

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 (New York, N.Y.) 1994) 2 3 4 60
  2. A genome-wide scan for common alleles affecting risk for autism. (PMID: 20663923) Anney R … Hallmayer J (Human molecular genetics 2010) 3 45 60
  3. Investigation of genetic susceptibility factors for human longevity - a targeted nonsynonymous SNP study. (PMID: 20800603) Flachsbart F … Nebel A (Mutation research 2010) 3 45 60
  4. A novel TBP-associated factor of SL1 functions in RNA polymerase I transcription. (PMID: 17318177) Gorski JJ … Zomerdijk JC (The EMBO journal 2007) 3 22 60
  5. c-Myc binds to human ribosomal DNA and stimulates transcription of rRNA genes by RNA polymerase I. (PMID: 15723054) Grandori C … White RJ (Nature cell biology 2005) 3 4 60

Products for TAF1C Gene

Sources for TAF1C Gene

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