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Aliases for TAF1D Gene

Aliases for TAF1D Gene

  • TATA Box Binding Protein (TBP)-Associated Factor, RNA Polymerase I, D, 41kDa 2 3
  • JOSD3 3 4 6
  • RNA Polymerase I-Specific TBP-Associated Factor 41 KDa 3 4
  • Transcription Initiation Factor SL1/TIF-IB Subunit D 3 4
  • TATA Box-Binding Protein-Associated Factor 1D 3 4
  • Josephin Domain Containing 3 2 3
  • TBP-Associated Factor 1D 3 4
  • RAFI41 3 6
  • TAFI41 3 4
  • TATA Box-Binding Protein-Associated Factor RNA Polymerase I Subunit D 3
  • TAF(I)41 3

External Ids for TAF1D Gene

Previous HGNC Symbols for TAF1D Gene

  • JOSD3

Previous GeneCards Identifiers for TAF1D Gene

  • GC11M093183
  • GC11M093195
  • GC11M093203
  • GC11M093472
  • GC11M093479
  • GC11M093480
  • GC11M093487
  • GC11M093503
  • GC11M093511
  • GC11M093519
  • GC11M093529
  • GC11M093545
  • GC11M093568

Summaries for TAF1D Gene

Entrez Gene Summary for TAF1D Gene

  • TAF1D is a member of the SL1 complex, which includes TBP (MIM 600075) and TAF1A (MIM 604903), TAF1B (MIM 604904), and TAF1C (MIM 604905), and plays a role in RNA polymerase I transcription (Wang et al., 2004 [PubMed 15520167]; Gorski et al., 2007 [PubMed 17318177]).[supplied by OMIM, Jun 2009]

GeneCards Summary for TAF1D Gene

TAF1D (TATA Box Binding Protein (TBP)-Associated Factor, RNA Polymerase I, D, 41kDa) is a Protein Coding gene. Among its related pathways are Gene Expression and RNA Polymerase I Promoter Opening.

UniProtKB/Swiss-Prot for TAF1D 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.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TAF1D Gene

Genomics for TAF1D Gene

Regulatory Elements for TAF1D Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for TAF1D Gene

Start:
93,729,948 bp from pter
End:
93,784,391 bp from pter
Size:
54,444 bases
Orientation:
Minus strand

Genomic View for TAF1D Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for TAF1D Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TAF1D Gene

Proteins for TAF1D Gene

  • Protein details for TAF1D Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H5J8-TAF1D_HUMAN
    Recommended name:
    TATA box-binding protein-associated factor RNA polymerase I subunit D
    Protein Accession:
    Q9H5J8
    Secondary Accessions:
    • Q6I9Y6

    Protein attributes for TAF1D Gene

    Size:
    278 amino acids
    Molecular mass:
    32058 Da
    Quaternary structure:
    • Component of the transcription factor SL1/TIF-IB complex, composed of TBP and at least TAF1A, TAF1B, TAF1C and TAF1D. Interacts with UBTF.

neXtProt entry for TAF1D Gene

Proteomics data for TAF1D Gene at MOPED

Post-translational modifications for TAF1D Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TAF1D Gene

No data available for DME Specific Peptides for TAF1D Gene

Domains for TAF1D Gene

Protein Domains for TAF1D Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for TAF1D Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with TAF1D: view

No data available for Gene Families and UniProtKB/Swiss-Prot for TAF1D Gene

Function for TAF1D Gene

Molecular function for TAF1D 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.

Gene Ontology (GO) - Molecular Function for TAF1D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0005515 protein binding IPI 15520167
genes like me logo Genes that share ontologies with TAF1D: view

Animal Model Products

miRNA for TAF1D Gene

miRTarBase miRNAs that target TAF1D

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for TAF1D

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , Transcription Factor Targeting and HOMER Transcription for TAF1D Gene

Localization for TAF1D Gene

Subcellular locations from UniProtKB/Swiss-Prot for TAF1D Gene

Gene Ontology (GO) - Cellular Components for TAF1D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus --
GO:0005654 nucleoplasm TAS --
GO:0005668 RNA polymerase transcription factor SL1 complex IEA --
GO:0005815 microtubule organizing center IDA --
genes like me logo Genes that share ontologies with TAF1D: view

No data available for Subcellular locations from COMPARTMENTS for TAF1D Gene

Pathways for TAF1D Gene

genes like me logo Genes that share pathways with TAF1D: view

Gene Ontology (GO) - Biological Process for TAF1D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000183 chromatin silencing at rDNA TAS --
GO:0006355 regulation of transcription, DNA-templated --
GO:0006360 transcription from RNA polymerase I promoter TAS --
GO:0006361 transcription initiation from RNA polymerase I promoter TAS --
GO:0006362 transcription elongation from RNA polymerase I promoter TAS --
genes like me logo Genes that share ontologies with TAF1D: view

Transcripts for TAF1D Gene

mRNA/cDNA for TAF1D Gene

Unigene Clusters for TAF1D Gene

TATA box binding protein (TBP)-associated factor, RNA polymerase I, D, 41kDa:
Representative Sequences:

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for TAF1D

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TAF1D Gene

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: -
SP6: - - -
SP7:
SP8: -
SP9: - -
SP10:
SP11:

ExUns: 13a · 13b ^ 14
SP1:
SP2: -
SP3:
SP4: -
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:

Relevant External Links for TAF1D Gene

GeneLoc Exon Structure for
TAF1D
ECgene alternative splicing isoforms for
TAF1D

Expression for TAF1D Gene

mRNA expression in normal human tissues for TAF1D Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for TAF1D Gene

SOURCE GeneReport for Unigene cluster for TAF1D Gene Hs.355750

genes like me logo Genes that share expressions with TAF1D: view

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for TAF1D Gene

Orthologs for TAF1D Gene

This gene was present in the common ancestor of chordates.

Orthologs for TAF1D Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TAF1D 35
  • 98.44 (n)
  • 98.56 (a)
TAF1D 36
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia TAF1D 35
  • 78.03 (n)
  • 66.28 (a)
TAF1D 36
  • 64 (a)
OneToOne
dog
(Canis familiaris)
Mammalia -- 36
  • 60 (a)
OneToMany
-- 36
  • 65 (a)
OneToMany
-- 36
  • 68 (a)
OneToMany
-- 36
  • 69 (a)
OneToMany
TAF1D 35
  • 79.51 (n)
  • 70.04 (a)
mouse
(Mus musculus)
Mammalia Taf1d 35
  • 68.91 (n)
  • 55.81 (a)
Taf1d 16
Taf1d 36
  • 48 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia TAF1D 36
  • 46 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TAF1D 36
  • 10 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Taf1d 35
  • 73.48 (n)
  • 60.23 (a)
chicken
(Gallus gallus)
Aves TAF1D 36
  • 26 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TAF1D 36
  • 36 (a)
OneToOne
Species with no ortholog for TAF1D:
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for TAF1D Gene

ENSEMBL:
Gene Tree for TAF1D (if available)
TreeFam:
Gene Tree for TAF1D (if available)

Paralogs for TAF1D Gene

No data available for Paralogs for TAF1D Gene

Variants for TAF1D Gene

Sequence variations from dbSNP and Humsavar for TAF1D Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type MAF
rs3765635 -- 93,737,527(-) ATTAT(A/G)GTAAA intron-variant
rs3819173 -- 93,739,404(-) GACCA(C/T)GTTCA intron-variant
rs35293708 -- 93,738,835(+) AGCTA(-/G)GGACT intron-variant
rs61921279 -- 93,739,423(+) CCAAT(A/G)ATTTC intron-variant
rs72974689 -- 93,737,363(+) TACTC(C/T)CCACT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TAF1D Gene

Variant ID Type Subtype PubMed ID
nsv898173 CNV Loss 21882294
nsv898181 CNV Gain 21882294
nsv898182 CNV Gain 21882294
nsv832232 CNV Gain 17160897

Relevant External Links for TAF1D Gene

HapMap Linkage Disequilibrium report
TAF1D

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TAF1D Gene

Disorders for TAF1D Gene

No disorders were found for TAF1D Gene.

No data available for UniProtKB/Swiss-Prot for TAF1D Gene

Publications for TAF1D Gene

  1. A novel nuclear protein, MGC5306 interacts with DNA polymerase beta and has a potential role in cellular phenotype. (PMID: 15520167) Wang L. … Banerjee S. (Cancer Res. 2004) 2 3 4 23
  2. 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) 2 3 4
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  5. A human protein-protein interaction network: a resource for annotating the proteome. (PMID: 16169070) Stelzl U. … Wanker E.E. (Cell 2005) 3

Products for TAF1D Gene

  • Addgene plasmids for TAF1D

Sources for TAF1D Gene

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