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TAF1D Gene

protein-coding   GIFtS: 41

GC11M093195
TATA box binding protein (TBP)-associated factor, RNA polymerase I, D, 41kDa
(Previous name: Josephin domain containing 3 )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: JOSD3)
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases
JOSD3 2, 3
MGC5306 1, 2
TAF(I)41 1, 2
TAFI41 3
Descriptions
Josephin domain containing 3 1, 2
TATA box binding protein (TBP)-associated factor, RNA
polymerase I, D, 41kDa 2
TATA box binding protein-associated factor, RNA polymerase
I, D, 41kDa 1
TATA box-binding protein-associated factor 1D 3
TBP-associated factor 1D 3
TBP-associated factor RNA polymerase I 41 kDa 3
External Ids
HGNC: 287591
Entrez Gene: 791012
UniProtKB: Q9H5J83
Ensembl: ENSG000001660127
Search outside databases for aliases for TAF1D gene

Previous GC identifer: GC11M093183

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

UniProtKB/Swiss-Prot: TAF1D_HUMAN, Q9H5J8
Function: Component of the transcription factor SL1/TIFIB complex involved in the assembly of the
PIC (preinitiation complex)

(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)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 11q21   Ensembl cytogenetic band:  11q21   HGNC cytogenetic band: 11q21

TAF1D 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 11         GeneLoc Exon Structure

GeneLoc location for GC11M093195:     (about GC identifiers)

Start:
93,103,017 bp from pter
End:
93,114,310 bp from pter
Size:
11,294 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000011.8  NT_008984.17  
(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: TAF1D_HUMAN, Q9H5J8 (See protein sequence)
Recommended Name: TATA box-binding protein-associated factor RNA polymerase I subunit D  
Size: 278 amino acids; 32058 Da
Subunit: Component of the transcription factor SL1/TIFIB complex which is composed of TBP and at
least TAF1A, TAF1B, TAF1C and TAF1D. In the complex, interacts directly with TBP, TAF1A, TAF1B 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: Q6I9Y6

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins: NP_077021.1  

    ENSEMBL proteins: 
    ENSP00000314971 ENSP00000376944 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
    Browse Purified and Recombinant Proteins at Millipore
    Sigma-Aldrich AQUA Peptides for TAF1D  
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Browse Abcam for Recombinant Proteins
    Browse Abnova for Human Recombinant Proteins
                    Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 


    Antibodies for TAF1D: 
    Browse Antibodies Central at Invitrogen
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Browse Antibodies at Sigma-Aldrich
    Browse R&D Systems for Antibodies
    Search for antibodies at Abcam and the World's Antibody Gateway (free search engine of over 150 antibody companies)
    Browse Abnova for Monoclonal and Polyclonal Antibodies
    Search Novus for antibodies for TAF1D

    Assays for TAF1D: 
    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: Q9H5J8

    (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.)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (TAF1D)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_024116

                  Applied Biosystems Silencer® siRNAs for TAF1D

                  Sigma-Aldrich siRNA for TAF1D  
                         Sigma-Aldrich shRNA for TAF1D  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for TAF1D
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_024116
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_024116
                                     untagged cDNA clone in CMV expression vector: NM_024116 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_024116

    UniProtKB/Swiss-Prot: TAF1D_HUMAN, Q9H5J8
    Function: Component of the transcription factor SL1/TIFIB complex involved in the assembly of the
    PIC (preinitiation complex)

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515 protein binding IPI15520167
    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.)
    About This Section



    1 Interacting protein for TAF1D (ENSP000003149713 Q9H5J81) via UniProtKB, MINT, and/or STRING
    InteractantInteraction Details
    GeneCardExternal ID(s)
    POLBP067461STRING (score=.966) EBI-716128, EBI-713836
    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 TAF1D

    (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 (TAF1D)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_024116

                  Sigma-Aldrich siRNA for TAF1D  
                         Sigma-Aldrich shRNA for TAF1D  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_024116  

    REFSEQ mRNAs for TAF1D gene: 

    NM_024116.2   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_024116  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_024116
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_024116
                                     untagged cDNA clone in CMV expression vector: NM_024116 

    Additional cDNA sequence: 

    AF086435.1 AK057183.1 CR457369.1 CR609260.1 

    24/31 DOTS entries (see all 31 ):

    DT.86854061  DT.406975  DT.70100314  DT.86836428  DT.92449371  DT.95360426  DT.100028608  DT.120738161 
    DT.97846568  DT.95360424  DT.40108354  DT.100751145  DT.100774278  DT.100773939  DT.95360435  DT.100816148 
    DT.100028613  DT.100705466  DT.100799894  DT.75140193  DT.92449370  DT.100698516  DT.120738126  DT.120738140 

    24/305 AceView cDNA sequences (see all 305 ):

    CR609260 BX476682 AA367799 AA748153 AI924962 AA810224 AW135413 BQ774057 
    AI928259 AA593582 AW410368 AA811355 CB158271 AW805766 BQ773263 T80408 
    BQ013392 CB138096 AK128061 BQ879138 AA279839 BU678795 BQ015041 CB159880 

    Unigene Cluster for TAF1D:

    TATA box binding protein (TBP)-associated factor, RNA polymerase I, D, 41kDa
    Hs.355750  [show with all ESTs]
    Unigene Representative Sequence: AK057183


    GeneLoc Exon Structure

    5/11 Alternative Splicing Database (ASD) splice patterns (SP) for TAF1D (see all 11 )

    ExUns: 1a · 1b ^ 2 ^ 3a · 3b · 3c · 3d ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b · 6c ^ 7 ^ 8 ^ 9a · 9b · 9c · 9d ^ 10a · 10b ^ 11a · 11b ^ 12a · 12b ^
    SP1:                                                        -                             -           -                 -           -     -           -         
    SP2:                                                                                      -           -                 -           -     -           -         
    SP3:                                                                                                  -                 -           -     -           -         
    SP4:                                                                                                                                                  -         
    SP5:                                                        -                                                                                                   

    ExUns: 13a · 13b ^ 14
    SP1:                  
    SP2:        -         
    SP3:                  
    SP4:        -         
    SP5:                  

    About this scheme

    ECgene alternative splicing isoforms for TAF1D

    2 Ensembl transcripts including schematic representations:
    ENST00000323981  ENST00000393259  
    (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

    TAF1D expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for TAF1D

    1 / 2

    10 probe-sets matching TAF1D gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
    49280_s_at2 U95-C 1 1.00 1.00 0.63 1.06 -- -- -- -- --

    65836_at2 U95-C 2 1.00 0.88 0.83 1.56 -- -- -- -- --

    49281_r_at2 U95-C 1 0.50 1.00 0.84 0.64 -- -- -- -- --

    44933_r_at2 U95-B 1 0.44 1.00 -0.21 0.75 -- -- -- -- --

    221580_s_at2 U133-A 1 1.00 1.00 -- -- -- -- -- -- --

    222728_s_at2 U133-B 1 1.00 1.00 -- -- -- -- -- -- --

    218750_at2 U133-A 2 1.00 0.73 -- -- -- -- -- -- --

    221580_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    222728_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    218750_at2 U133Plus2 2 1.00 0.73 -- -- -- -- -- -- --
    GeneDecks  TAF1D for binary patterns associated with the probe-sets selected above  
    About GeneDecksing
    About this table    
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: GAATTCCTCG

    SOURCE GeneReport for Unigene cluster: Hs.355750
    (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 TAF1D gene from 5/6 species (see all 6 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    TAF1D1   -- TATA box binding protein (TBP)-associated factor, RNA more 80.99(n)
    71.87(a)
    476770  XM_533976.2  XP_533976.1 
    chimpanzee
    (Pan troglodytes)
    TAF1D1   -- TATA box binding protein (TBP)-associated factor, RNA more 99.15(n)
    99.15(a)
    451484  XM_508696.2  XP_508696.2 
    cow
    (Bos taurus)
    TAF1D1   -- TATA box binding protein (TBP)-associated factor, RNA more 78.16(n)
    66.67(a)
    505533  NM_001037586.1  NP_001032675.1 
    rat
    (Rattus norvegicus)
    Taf1d1   -- TATA box binding protein (TBP)-associated factor, RNA more 74.24(n)
    62.12(a)
    363017  NM_001014207.1  NP_001014229.1 
    mouse
    (Mus musculus)
    Taf1d1, 5 95
    TATA box binding protein (Tbp)-associated factor, RNA more1, 5 73.75(n)1
    61.81(a)1
    753161  NM_029248.11  NP_083524.11 
     AA6729265  AI6663935  (see all 26)
    About this table        Species with no ortholog for TAF1D

    ENSEMBL Gene Tree for TAF1D
    (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 NCBI SNPs in TAF1D are shown
    (Click for Applied Biosystems TaqMan ® Genotyping Assay) (only AB snps)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 11 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs110205031,2
    C,F,H93109297(+) TGTATC/TAGAAT 1 -- int14Minor allele frequency- T:0.01EU EA WA 418
    rs38191731,2
    F,H93112218(-) GACCAC/TGTTCA 1 -- int15Minor allele frequency- T:0.07EA EU WA 1898
    --
    rs342353571,2
    --93108605(+) TCAAA-/TTCCCC 1 -- ng510--------
    --
    rs596512461,2
    --93108407(+) AACCCA/GGGAGA 1 -- ng510--------
    --
    rs355905701,2
    --93108617(+) TTCAA-/GGATGG 1 -- ng510--------
    rs345916131,2
    --93109540(+) TTCAAG/CATGTG 1 V/L mis11Minor allele frequency- C:0.01NA 72
    rs37656351,2
    --93110341(-) ATTATA/GGTAAA 1 -- int10--------
    --
    rs729746891,2
    --93110177(+) TACTCC/TCCACT 1 -- int10--------
    rs619212791,2
    --93112237(+) CCAATA/GATTTC 1 -- int10--------
    --
    rs352937081,2
    --93111649(+) AGCTA-/GGGACT 1 -- int10--------
    About this table
    The following additional 42 SNP(s) have been found in Applied Biosystems data source:
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)


     rs644306 rs10831097 rs3168206 rs16919292 rs10360 rs34907671 rs4317945
     rs61740994 rs2298706 rs623510 rs7131178 rs16919258 rs630648 rs12416757
     rs10741476 rs603360 rs11823665 rs620212 rs2288505 rs10831095 rs681321
     rs665507 rs652961 rs16919288 rs12277129 rs7943266 rs1944107 rs631116
     rs1944099 rs17651231 rs624856 rs7101779 rs10831096 rs3737461 rs602203
     rs2509840 rs35717287 rs666470 rs61738803 rs1944108 rs628916 rs694699

    HapMap Linkage Disequilibrium images for TAF1D (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: 612823

    (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

    7 PubMed articles for TAF1D gene:
    (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: 79101 HGNC: 28759 AceView: MGC5306 Ensembl:ENSG00000166012 euGenes: HUgn79101
    ECgene: TAF1D H-InvDB: TAF1D
    (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 TAF1D:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



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