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Aliases for TAF1B Gene

Aliases for TAF1B Gene

  • TATA-Box Binding Protein Associated Factor, RNA Polymerase I Subunit B 2 3 5
  • TATA Box Binding Protein (TBP)-Associated Factor, RNA Polymerase I, B, 63kDa 2 3
  • TATA Box Binding Protein (TBP)-Associated Factor, RNA Polymerase I, B, 63kD 2 3
  • RNA Polymerase I-Specific TBP-Associated Factor 63 KDa 3 4
  • Transcription Initiation Factor SL1/TIF-IB Subunit B 3 4
  • TATA Box-Binding Protein-Associated Factor 1B 3 4
  • TBP-Associated Factor 1B 3 4
  • TAFI63 3 4
  • TATA Box-Binding Protein-Associated Factor RNA Polymerase I Subunit B 3
  • TATA-Box Binding Protein Associated Factor, RNA Polymerase I, B 3
  • SL1, 63kD Subunit 3
  • MGC:9349 3
  • RAFI63 3
  • RAF1B 3
  • SL1 3

External Ids for TAF1B Gene

Previous GeneCards Identifiers for TAF1B Gene

  • GC02P009767
  • GC02P010034
  • GC02P010006
  • GC02P010007
  • GC02P009934
  • GC02P009983

Summaries for TAF1B Gene

Entrez Gene Summary for TAF1B 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 one of the SL1-specific TAFs. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jan 2016]

GeneCards Summary for TAF1B Gene

TAF1B (TATA-Box Binding Protein Associated Factor, RNA Polymerase I Subunit B) is a Protein Coding gene. Among its related pathways are Apoptotic Pathways in Synovial Fibroblasts and PEDF Induced Signaling. Gene Ontology (GO) annotations related to this gene include DNA binding transcription factor activity and RNA polymerase I CORE element sequence-specific DNA binding.

UniProtKB/Swiss-Prot for TAF1B Gene

  • Component of RNA polymerase I core factor complex that acts as a GTF2B/TFIIB-like factor and plays a key role in multiple steps during transcription initiation such as pre-initiation complex (PIC) assembly and postpolymerase recruitment events in polymerase I (Pol I) transcription. Binds rDNA promoters and plays a role in Pol I recruitment as a component of the SL1/TIF-IB complex and, possibly, directly through its interaction with RRN3.

Gene Wiki entry for TAF1B Gene

Additional gene information for TAF1B Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TAF1B Gene

Genomics for TAF1B Gene

GeneHancer (GH) Regulatory Elements for TAF1B Gene

Promoters and enhancers for TAF1B Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH02I009842 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 613.9 +0.6 636 2.9 PKNOX1 SMAD1 FOXA2 MLX ARID4B SIN3A FEZF1 DMAP1 ZBTB7B SLC30A9 TAF1B LOC101929882 CPSF3 ENSG00000269973 NOL10 ENSG00000239300
GH02I010429 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 31.7 +589.5 589506 5.8 HDGF PKNOX1 FOXA2 ARNT ARID4B NEUROD1 SIN3A YBX1 FEZF1 ZBTB7B TAF1B LOC101929882 KLF11 NOL10 C2orf48 ENSG00000217258 YWHAQ ENSG00000239300 CYS1 ENSG00000233502
GH02I009819 Enhancer 0.8 ENCODE dbSUPER 38.4 -23.2 -23167 1.3 ZBTB6 JUN HLF MAX USF2 CEBPB SMARCB1 BRCA1 HIC1 ZFHX2 TAF1B ENSG00000269973 LOC105373421
GH02I009421 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 13.2 -419.8 -419833 3.4 PKNOX1 SMAD1 ARID4B NEUROD1 SIN3A DMAP1 YY1 POLR2B ZNF213 E2F8 CPSF3 ITGB1BP1 TAF1B ENSG00000239300 IAH1 ASAP2 ADAM17 GC02M009313
GH02I009894 Enhancer 1.2 Ensembl ENCODE dbSUPER 24.3 +53.4 53430 3.8 PKNOX1 FOXA2 NFIB BATF ZNF366 FOS CREM RUNX3 ZNF362 JUNB TAF1B ENSG00000269973
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around TAF1B on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the TAF1B gene promoter:

Genomic Locations for TAF1B Gene

Genomic Locations for TAF1B Gene
chr2:9,843,354-9,934,416
(GRCh38/hg38)
Size:
91,063 bases
Orientation:
Plus strand
chr2:9,983,483-10,074,545
(GRCh37/hg19)

Genomic View for TAF1B Gene

Genes around TAF1B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TAF1B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TAF1B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TAF1B Gene

Proteins for TAF1B Gene

  • Protein details for TAF1B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q53T94-TAF1B_HUMAN
    Recommended name:
    TATA box-binding protein-associated factor RNA polymerase I subunit B
    Protein Accession:
    Q53T94
    Secondary Accessions:
    • B4DI42
    • F8WD72
    • Q15574
    • Q8WVC3

    Protein attributes for TAF1B Gene

    Size:
    588 amino acids
    Molecular mass:
    68832 Da
    Quaternary structure:
    • Interacts with FLNA (via N-terminus) (By similarity). 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 TAF1C. Interaction of the SL1/TIF-IB subunits with TBP excludes interaction of TBP with the transcription factor IID (TFIID) subunits. Interacts with TBP and RRN3.
    SequenceCaution:
    • Sequence=AAA62863.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Alternative splice isoforms for TAF1B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TAF1B Gene

Post-translational modifications for TAF1B Gene

  • Ubiquitination at isoforms=256, posLast=431431, and posLast=508508

No data available for DME Specific Peptides for TAF1B Gene

Domains & Families for TAF1B Gene

Gene Families for TAF1B Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted membrane proteins

Protein Domains for TAF1B Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for TAF1B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q53T94

UniProtKB/Swiss-Prot:

TAF1B_HUMAN :
  • Although it shares weak sequence similarity with GTF2B/TFIIB, displays a similar subdomain organization as GTF2B/TFIIB, with a N-terminal zinc finger, a connecting region (composed of B-reader and B-linker regions), followed by 2 cyclin folds. The RRN7-type zinc finger plays an essential postrecruitment role in Pol I transcription at a step preceding synthesis of the first 40 nucleotides (PubMed:21921198 and PubMed:21921199).
  • Belongs to the RRN7/TAF1B family.
Domain:
  • Although it shares weak sequence similarity with GTF2B/TFIIB, displays a similar subdomain organization as GTF2B/TFIIB, with a N-terminal zinc finger, a connecting region (composed of B-reader and B-linker regions), followed by 2 cyclin folds. The RRN7-type zinc finger plays an essential postrecruitment role in Pol I transcription at a step preceding synthesis of the first 40 nucleotides (PubMed:21921198 and PubMed:21921199).
Family:
  • Belongs to the RRN7/TAF1B family.
genes like me logo Genes that share domains with TAF1B: view

Function for TAF1B Gene

Molecular function for TAF1B Gene

GENATLAS Biochemistry:
template activating factor I,specifically interactin with mitotic cyclin B
UniProtKB/Swiss-Prot Function:
Component of RNA polymerase I core factor complex that acts as a GTF2B/TFIIB-like factor and plays a key role in multiple steps during transcription initiation such as pre-initiation complex (PIC) assembly and postpolymerase recruitment events in polymerase I (Pol I) transcription. Binds rDNA promoters and plays a role in Pol I recruitment as a component of the SL1/TIF-IB complex and, possibly, directly through its interaction with RRN3.

Phenotypes From GWAS Catalog for TAF1B Gene

Gene Ontology (GO) - Molecular Function for TAF1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001164 RNA polymerase I CORE element sequence-specific DNA binding IDA 21921198
GO:0001187 transcription factor activity, RNA polymerase I CORE element binding transcription factor recruiting IDA,IEA 21921198
GO:0003677 DNA binding IEA --
GO:0003700 DNA binding transcription factor activity NAS 7801123
GO:0005515 protein binding IPI 17318177
genes like me logo Genes that share ontologies with TAF1B: view
genes like me logo Genes that share phenotypes with TAF1B: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TAF1B Gene

Localization for TAF1B Gene

Subcellular locations from UniProtKB/Swiss-Prot for TAF1B Gene

Nucleus, nucleolus.

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 TAF1B gene
Compartment Confidence
extracellular 5
nucleus 5
peroxisome 1
endoplasmic reticulum 1
cytosol 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoli (3)
  • Nucleus (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for TAF1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus NAS 7801123
GO:0005654 nucleoplasm TAS --
GO:0005668 RNA polymerase transcription factor SL1 complex IBA --
GO:0005730 nucleolus IEA --
GO:0070062 extracellular exosome IDA,HDA 23376485
genes like me logo Genes that share ontologies with TAF1B: view

Pathways & Interactions for TAF1B Gene

genes like me logo Genes that share pathways with TAF1B: view

Gene Ontology (GO) - Biological Process for TAF1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001188 RNA polymerase I transcriptional preinitiation complex assembly IEA --
GO:0001189 RNA polymerase I transcriptional preinitiation complex assembly at the promoter for the nuclear large rRNA transcript IDA,IEA 21921199
GO:0006351 transcription, DNA-templated NAS 7801123
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006360 transcription by RNA polymerase I IEA --
genes like me logo Genes that share ontologies with TAF1B: view

No data available for SIGNOR curated interactions for TAF1B Gene

Drugs & Compounds for TAF1B Gene

No Compound Related Data Available

Transcripts for TAF1B Gene

Unigene Clusters for TAF1B Gene

TATA box binding protein (TBP)-associated factor, RNA polymerase I, B, 63kDa:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for TAF1B Gene

No ASD Table

Relevant External Links for TAF1B Gene

GeneLoc Exon Structure for
TAF1B
ECgene alternative splicing isoforms for
TAF1B

Expression for TAF1B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TAF1B Gene

Protein differential expression in normal tissues from HIPED for TAF1B Gene

This gene is overexpressed in Lung (51.7) and Platelet (15.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TAF1B Gene



Protein tissue co-expression partners for TAF1B Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TAF1B Gene:

TAF1B

SOURCE GeneReport for Unigene cluster for TAF1B Gene:

Hs.584833

Evidence on tissue expression from TISSUES for TAF1B Gene

  • Intestine(4.3)
  • Nervous system(4.2)
  • Blood(2.4)
  • Heart(2.2)
genes like me logo Genes that share expression patterns with TAF1B: 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 TAF1B Gene

Orthologs for TAF1B Gene

This gene was present in the common ancestor of chordates.

Orthologs for TAF1B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TAF1B 33 34
  • 99.21 (n)
dog
(Canis familiaris)
Mammalia TAF1B 33 34
  • 87.17 (n)
cow
(Bos Taurus)
Mammalia TAF1B 33 34
  • 85.66 (n)
mouse
(Mus musculus)
Mammalia Taf1b 33 16 34
  • 80.44 (n)
rat
(Rattus norvegicus)
Mammalia Taf1b 33
  • 79.39 (n)
oppossum
(Monodelphis domestica)
Mammalia TAF1B 34
  • 69 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 64 (a)
OneToMany
-- 34
  • 63 (a)
OneToMany
chicken
(Gallus gallus)
Aves TAF1B 33 34
  • 64.84 (n)
lizard
(Anolis carolinensis)
Reptilia TAF1B 34
  • 44 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia taf1b 33
  • 58.93 (n)
African clawed frog
(Xenopus laevis)
Amphibia MGC52843 33
zebrafish
(Danio rerio)
Actinopterygii taf1b 33 34
  • 50.49 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 23 (a)
OneToOne
Species where no ortholog for TAF1B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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 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 TAF1B Gene

ENSEMBL:
Gene Tree for TAF1B (if available)
TreeFam:
Gene Tree for TAF1B (if available)

Paralogs for TAF1B Gene

No data available for Paralogs for TAF1B Gene

Variants for TAF1B Gene

Sequence variations from dbSNP and Humsavar for TAF1B Gene

SNP ID Clin Chr 02 pos Variation AA Info Type
rs1000024318 -- 9,862,549(+) A/G intron_variant
rs1000028773 -- 9,865,581(+) AAAAAA/AAAAAAA intron_variant
rs1000085603 -- 9,915,471(+) A/G intron_variant
rs1000107915 -- 9,918,387(+) C/A/G intron_variant
rs1000116746 -- 9,915,097(+) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for TAF1B Gene

Variant ID Type Subtype PubMed ID
nsv580960 CNV gain 21841781
nsv1009210 CNV loss 25217958
nsv1005938 CNV loss 25217958
nsv1003855 CNV loss 25217958
nsv1003026 CNV gain 25217958
dgv3714n100 CNV loss 25217958
dgv1100e212 CNV loss 25503493

Variation tolerance for TAF1B Gene

Residual Variation Intolerance Score: 71.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 10.20; 90.44% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TAF1B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TAF1B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TAF1B Gene

Disorders for TAF1B Gene

Additional Disease Information for TAF1B

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

No disorders were found for TAF1B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TAF1B Gene

Publications for TAF1B Gene

  1. Genomic localization of the human genes TAF1A, TAF1B and TAF1C, encoding TAF(I)48, TAF(I)63 and TAF(I)110 subunits of class I general transcription initiation factor SL1. (PMID: 10894955) Di Pietro C … Purrello M (Cytogenetics and cell genetics 2000) 3 4 22 58
  2. 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 58
  3. TAF1B is a TFIIB-like component of the basal transcription machinery for RNA polymerase I. (PMID: 21921199) Naidu S … Zomerdijk JC (Science (New York, N.Y.) 2011) 3 4 58
  4. Yeast Rrn7 and human TAF1B are TFIIB-related RNA polymerase I general transcription factors. (PMID: 21921198) Knutson BA … Hahn S (Science (New York, N.Y.) 2011) 3 4 58
  5. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58

Products for TAF1B Gene

Sources for TAF1B Gene

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