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TAF1B Gene

protein-coding   GIFtS: 51

GC02P009934
TATA box binding protein (TBP)-associated factor, RNA polymerase I, B, 63kDa
(Previous names: TATA box binding protein (TBP)-associated factor, RNA polymerase I, B, 63kD )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases
MGC:9349 2
RAF1B 1, 2
RAFI63 1, 2
SL1 1, 2
TAFI63 1, 2, 3
Descriptions
SL1, 63kD subunit 2
TATA box binding protein (TBP)-associated factor, RNA
polymerase I, B, 63kD 1
TATA box binding protein (TBP)-associated factor, RNA
polymerase I, B, 63kDa 2
TATA box binding protein-associated factor, RNA polymerase
I, B, 63kDa 1
TATA box-binding protein-associated factor 1B 3
TBP-associated factor 1B 2, 3
TBP-associated factor RNA polymerase I 63 kDa 3
Transcription factor SL1 3
External Ids
HGNC: 115331
Entrez Gene: 90142
UniProtKB: Q53T943
Ensembl: ENSG000001157507
Search outside databases for aliases for TAF1B gene

Previous GC identifers: GC02P009767 GC02P010034 GC02P010006 GC02P010007

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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EntrezGene summary for TAF1B:
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. [provided by RefSeq]

UniProtKB/Swiss-Prot: TAF1B_HUMAN, Q53T94
Function: Component of the transcription factor SL1/TIFIB complex involved in the assembly of the
PIC (preinitiation complex)

Gene Wiki entry for TAF1B

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
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Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the TAF1B gene  

Entrez Gene cytogenetic band: 2p25   Ensembl cytogenetic band:  2p25.1   HGNC cytogenetic band: 2p25

TAF1B Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 2         GeneLoc Exon Structure

GeneLoc location for GC02P009934:     (about GC identifiers)

Start:
9,890,887 bp from pter
End:
9,991,996 bp from pter
Size:
101,110 bases
Orientation:
plus strand
RefSeq DNA sequence:
NC_000002.10  NT_005334.15  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
About This Section

UniProtKB/Swiss-Prot: TAF1B_HUMAN, Q53T94 (See protein sequence)
Recommended Name: TATA box-binding protein-associated factor RNA polymerase I subunit B  
Size: 588 amino acids; 68832 Da
Subunit: Component of the transcription factor SL1/TIFIB complex which is composed of TBP and at
least TAF1A, TAF1B and TAF1C. In the complex, interacts directly with TBP, TAF1A and TAF1C.
Interaction of the SL1/TIFIB subunits with TBP excludes interaction with the transcription factor
IID (TFIID) subunits. This mutually exclusive binding directs the formation of promoter and RNA
polymerase-selective TBP-TAF complexes
Subcellular location: Nucleus
Secondary accessions: Q15574 Q8WVC3
Alternative splicing: 2 isoforms:  Q53T94-1   Q53T94-2   

REFSEQ proteins: NP_005671.2  

ENSEMBL proteins: 
ENSP00000384598 ENSP00000385959 ENSP00000263663 ENSP00000379540 ENSP00000379542 


Human Recombinant Proteins 
Browse Drug Discovery Central at Invitrogen for human recombinant proteins
Browse Purified and Recombinant Proteins at Millipore
Browse Human Recombinant Proteins at Sigma-Aldrich  
Browse R&D Systems for human recombinant proteins
Browse recombinant and purified proteins available from Enzo Life Sciences
Recombinant Proteins from Abcam (TAF1B)
Human Recombinant Proteins from Abnova (TAF1B)
                Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

2 Gene Ontology (GO) cellular component terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005634 nucleus NAS7801123
GO:0005654 nucleoplasm EXP9582279 11250901 12393749 12646563
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Antibodies for TAF1B: 
Browse Antibodies Central at Invitrogen
Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
Sigma-Aldrich Antibodies for TAF1B
Browse R&D Systems for Antibodies
Antibodies from Abcam (TAF1B), each with their AbpromiseSM
Monoclonal and Polyclonal Antibodies from Abnova (TAF1B)
Novus Biologicals Antibodies for TAF1B

Assays for TAF1B: 
Browse Invitrogen for biochemical assays
Browse Kits and Assays available from Millipore
Browse R&D Systems for biochemical assays
Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

ProtoNet protein and cluster: Q53T94

UniProtKB/Swiss-Prot: TAF1B_HUMAN, Q53T94
Similarity: Belongs to the TAF1 family

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (TAF1B)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (TAF1B)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_005680

              Applied Biosystems Silencer® siRNAs for TAF1B

              Sigma-Aldrich siRNA for TAF1B  
                     Sigma-Aldrich shRNA for TAF1B  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Invitrogen Clones for TAF1B
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_005680
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_005680
                                 untagged cDNA clones in CMV expression vector (see all 2): NM_005680 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_005680

UniProtKB/Swiss-Prot: TAF1B_HUMAN, Q53T94
Function: Component of the transcription factor SL1/TIFIB complex involved in the assembly of the
PIC (preinitiation complex)

Genatlas biochemistry entry for TAF1B:
template activating factor I,specifically interactin with mitotic cyclin B

1 Gene Ontology (GO) molecular function term (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0003700 transcription factor activity NAS7801123
About this table

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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 Gene Network CentralTM Interacting Genes and Proteins Network for  TAF1B 


5/27 Interacting proteins for TAF1B (Q53T942 ENSP000002636633) via UniProtKB, MINT, and/or STRING (see all 27 )
InteractantInteraction Details
GeneCardExternal ID(s)
TBPP202262, ENSP000002303543MINT-4543773 MINT-4544134 MINT-4543916 STRING (score=.984)
TAF1AQ155732, ENSP000003270723MINT-4543890 STRING (score=.999)
SETQ011052MINT-4543845 MINT-4544058 MINT-4543871
TAF1CQ155722MINT-4543903
RRN3ENSP000001987673STRING (score=.986)
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1 Gene Ontology (GO) biological process term (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0006355 regulation of transcription, DNA-dependent IEA--
About this table
(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences
Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for TAF1B

(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (TAF1B)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (TAF1B)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_005680

              Sigma-Aldrich siRNA for TAF1B  
                     Sigma-Aldrich shRNA for TAF1B  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_005680  

REFSEQ mRNAs for TAF1B gene: 

NM_005680.2   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_005680  

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_005680
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_005680
                                 untagged cDNA clones in CMV expression vector (see all 2): NM_005680 

Additional cDNA sequence: 

AK026521.1 AK124192.1 AK295402.1 AK308070.1 AK309751.1 AK315098.1 BC018137.2 CR606132.1 
CR616493.1 CR622846.1 L39061.1 

17 DOTS entries:

DT.210623  DT.101975420  DT.91752588  DT.91742818  DT.100777167  DT.300603  DT.100667187  DT.120968403 
DT.120968441  DT.91752591  DT.100777166  DT.40125689  DT.91752592  DT.95107044  DT.99947775  DT.100743103 
DT.95258536 

24/158 AceView cDNA sequences (see all 158 ):

CR622846 AA620887 AA811940 CR606132 CR616493 CA423871 AA746267 AI436217 
AW954208 F09444 BX117196 BX371656 AL528401 BC018137 AA534600 AA702292 
AI188257 BI918201 BX425268 AI188329 BG527360 BQ011382 BX472202 BP353583 

highest scoring ESTs for TAF1B:

AI968709 AA004579 AA702292 AA746267 AK026521 AL528369 AL571515 AW193501 AW873654 BC018137 

Unigene Cluster for TAF1B:

TATA box binding protein (TBP)-associated factor, RNA polymerase I, B, 63kDa
Hs.584833  [show with all ESTs]
Unigene Representative Sequence: CR622846


GeneLoc Exon Structure

5 Ensembl transcripts including schematic representations:
ENST00000404869  ENST00000402170  ENST00000263663  ENST00000396240  ENST00000396242  
(Experimental results according to 1GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
About This Section

TAF1B expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for TAF1B

1 / 2 / 3

7 probe-sets matching TAF1B gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

34497_at2, 3 U95-A 1 0.94 1.00 0.53 0.65 L39061 0.80 1.00 0.91 1

71653_r_at2, 3 U95-E 1 0.56 1.00 0.80 1.13 AI968709 1.00 1.00 1.00 1

55779_at*2, 3 U95-C 1 -- -- 0.83 1.01 AA620887 0.20 1.00 0.72 1

216941_s_at2, 3 U133-A 1 1.00 1.00 -- -- AK026521 0.80 1.00 0.91 1

214690_at2, 3 U133-A 1 0.73 1.00 -- -- AA004579 0.80 1.00 0.91 1

216941_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

214690_at2 U133Plus2 1 0.73 1.00 -- -- -- -- -- -- --
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Data from (Publications) and GNF BioGPS
    About these images
About these images

CGAP SAGE TAG: AAGAAGTGAG

SOURCE GeneReport for Unigene cluster: Hs.584833

Expression variation in blood from EXPOLDB for TAF1B

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section


Orthologs for TAF1B gene from 5/7 species (see all 7 )
Organism Gene Locus Description Human
Similarity
NCBI accessions
chimpanzee
(Pan troglodytes)
TAF1B1   -- TATA box binding protein (TBP)-associated factor, RNA more 99.15(n)
99.15(a)
459022  XM_515295.2  XP_515295.2 
cow
(Bos taurus)
TAF1B1   -- TATA box binding protein (TBP)-associated factor, RNA more 85.6(n)
81.12(a)
511236  NM_001075503.1  NP_001068971.1 
rat
(Rattus norvegicus)
Taf1b1   -- TATA box binding protein (Tbp)-associated factor, RNA more 79.41(n)
74.57(a)
690450  XM_001074480.1  XP_001074480.1 
mouse
(Mus musculus)
Taf1b1, 5 125
TATA box binding protein (Tbp)-associated factor, RNA more1, 5 80.2(n)1
74.57(a)1
213401  NM_020614.11  NP_065639.11 
 AK0207205  AK1319635  (see all 15)
chicken
(Gallus gallus)
TAF1B1   -- TATA box binding protein (TBP)-associated factor, RNA more 64.29(n)
54.61(a)
421933  NM_001006416.1  NP_001006416.1 
About this table        Species with no ortholog for TAF1B

ENSEMBL Gene Tree for TAF1B
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

  --
(According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section


10/659 NCBI SNPs in TAF1B are shown (see all 659 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 236)
ABGenomic DataTranscription DataAllele Frequencies
SNP IDValidChr 2 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
------------
rs18209651,2
A,C,F,H,O9977221(-) GTTGAA/CTCGAC 1 E/D mis1 ese313Minor allele frequency- C:0.48MN EU EA WA NA 1234
rs3860061,2
A,C,F,H9900059(+) TCTTGA/GGATGT 1 -- ng517Minor allele frequency- G:0.07EU EA WA NA 552
rs23039141,2
A,C,F,H9901137(+) AGGAGT/GCGGTA 1 S/A mis18Minor allele frequency- G:0.30EA NA EU WA 2008
--
rs10621601,2
C,F,H9991835(+) TCATCA/GTATTT 1 -- ut314Minor allele frequency- G:0.20EU EA WA 420
rs3961901,2
C,F,H9962475(+) AAACAA/GTAGAA 1 I/V mis16Minor allele frequency- G:0.17EU EA WA NA 466
--
rs168672231,2
C,F,H9962506(+) GCCTCG/ATTTTC 1 H/R mis1 ese37Minor allele frequency- A:0.01NA EU EA WA 544
rs10545651,2
C,F,H9968411(+) CAAAAA/GCTGTT 1 T/A mis118Minor allele frequency- G:0.46NS MN EA NA EU WA 1316
rs168672451,2
C,F,H9977295(+) TAGAAC/TGTGTT 1 T/M mis112Minor allele frequency- N:0.01NA EU EA WA 1042
--
rs67310441,2
A,C9899915(+) tcccaA/Cagtga 1 -- ng510--------
--
rs124739441,2
A,C9992125(+) GAggcC/Tgggcg 1 -- ng310--------
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HapMap Linkage Disequilibrium images for TAF1B (up to first 250kb)

(in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

OMIM: 604904

(Possibly Related Articles in Doctor's Guide)
About This Section

  --

(in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
About This Section

10/17 PubMed articles for TAF1B gene (see all 17 ):
(in PubMed, OMIM, and NCBI Bookshelf)
About This Section

 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)
(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
About This Section

Entrez Gene: 9014 HGNC: 11533 AceView: TAF1B Ensembl:ENSG00000115750 euGenes: HUgn9014
ECgene: TAF1B H-InvDB: TAF1B
(According to HUGE)
About This Section

  --
(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

  --
(Available from WIS Yeda, Salk, Tufts)
About This Section

  --
(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
About This Section



Products for TAF1B:
 TaqMan ® Gene Expression Assays
 TaqMan ® Genotyping Assays
  Free SNP selection tool



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 Predesigned and custom siRNAs for TAF1B Antibodies for TAF1B
 Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
 Lentivirus-delivered shRNAs for TAF1B Browse small molecules at Sigma-Aldrich
 "Your Favorite Gene" Pathwaysfeedback


  
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 Antibodies for TAF1B

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