Human Gene TAF5L (uc001htq.3) Description and Page Index
  Description: Homo sapiens TAF5-like RNA polymerase II, p300/CBP-associated factor (PCAF)-associated factor, 65kDa (TAF5L), transcript variant 1, mRNA.
RefSeq Summary (NM_014409): The product of this gene belongs to the WD-repeat TAF5 family of proteins. This gene encodes a protein that is a component of the PCAF histone acetylase complex. The PCAF histone acetylase complex, which is composed of more than 20 polypeptides some of which are TAFs, is required for myogenic transcription and differentiation. TAFs may participate in basal transcription, serve as coactivators, function in promoter recognition or modify general transcription factors to facilitate complex assembly and transcription initiation. The encoded protein is structurally similar to one of the histone-like TAFs, TAF5. Alternatively spliced transcript variants encoding different isoforms have been identified for this gene. [provided by RefSeq, Jul 2008].
Transcript (Including UTRs)
   Position: hg19 chr1:229,728,866-229,761,794 Size: 32,929 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr1:229,730,044-229,750,229 Size: 20,186 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:229,728,866-229,761,794)mRNA (may differ from genome)Protein (589 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtPubMedReactomeStanford SOURCETreefamUniProtKB
Wikipedia

-  Comments and Description Text from UniProtKB
  ID: TAF5L_HUMAN
DESCRIPTION: RecName: Full=TAF5-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 5L; AltName: Full=PCAF-associated factor 65 beta; Short=PAF65-beta;
FUNCTION: Functions as a component of the PCAF complex. The PCAF complex is capable of efficiently acetylating histones in a nucleosomal context. The PCAF complex could be considered as the human version of the yeast SAGA complex.
SUBUNIT: The PCAF complex is composed of a number of TBP- associated factors (TAFS), such as TAF5, TAF5L, TAF6, TAF6L, TAF9, TAF10 and TAF12, PCAF, and also PCAF-associated factors (PAFs), such as TADA2L/ADA2, TADA3L/ADA3 and SPT3. Component of the STAGA transcription coactivator-HAT complex, at least composed of SUPT3H, GCN5L2, TAF5L, TAF6L, SUPT7L, TADA3L, TAD1L, TAF10, TAF12, TRRAP and TAF9.
SUBCELLULAR LOCATION: Nucleus.
SIMILARITY: Belongs to the WD repeat TAF5 family.
SIMILARITY: Contains 6 WD repeats.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): TAF5L
CDC HuGE Published Literature: TAF5L
Positive Disease Associations: diabetes, type 1 , Stroke
Related Studies:
  1. diabetes, type 1
    Chistiakov, D. A. et al. 2005, The TAF5L gene on chromosome 1q42 is associated with type 1 diabetes in Russian affected patients., Autoimmunity. 2005 Jun;38(4):283-93. [PubMed 16206511]
  2. Stroke
    , , . [PubMed 0]

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 7.62 RPKM in Artery - Tibial
Total median expression: 197.09 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -87.40166-0.527 Picture PostScript Text
3' UTR -383.291178-0.325 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR020472 - G-protein_beta_WD-40_rep
IPR007582 - TFIID-su_WD40-assoc_reg
IPR015943 - WD40/YVTN_repeat-like_dom
IPR001680 - WD40_repeat
IPR019775 - WD40_repeat_CS
IPR017986 - WD40_repeat_dom

Pfam Domains:
PF00400 - WD domain, G-beta repeat
PF04494 - WD40 associated region in TFIID subunit, NTD2 domain

SCOP Domains:
50952 - Soluble quinoprotein glucose dehydrogenase
50960 - TolB, C-terminal domain
63825 - YWTD domain
63829 - Calcium-dependent phosphotriesterase
69304 - Tricorn protease N-terminal domain
101898 - NHL repeat
50965 - Galactose oxidase, central domain
75011 - 3-carboxy-cis,cis-mucoante lactonizing enzyme
101908 - Putative isomerase YbhE
50969 - YVTN repeat-like/Quinoprotein amine dehydrogenase
50974 - Nitrous oxide reductase, N-terminal domain
50978 - WD40 repeat-like
50993 - Prolyl oligopeptidase, N-terminal domain
69322 - Tricorn protease domain 2
50998 - Quinoprotein alcohol dehydrogenase-like
51004 - C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase
82171 - Dipeptidyl peptidase IV/CD26, N-terminal domain

ModBase Predicted Comparative 3D Structure on O75529
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
 Protein SequenceProtein Sequence   
 AlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0003713 transcription coactivator activity
GO:0005515 protein binding
GO:0004402 histone acetyltransferase activity

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006366 transcription from RNA polymerase II promoter
GO:0043966 histone H3 acetylation

Cellular Component:
GO:0005634 nucleus
GO:0016607 nuclear speck
GO:0030914 STAGA complex
GO:0033276 transcription factor TFTC complex
GO:0036464 cytoplasmic ribonucleoprotein granule


-  Descriptions from all associated GenBank mRNAs
  AJ009770 - Homo sapiens mRNA for putative transcription factor, partial.
JD452256 - Sequence 433280 from Patent EP1572962.
JD116669 - Sequence 97693 from Patent EP1572962.
JD271609 - Sequence 252633 from Patent EP1572962.
JD534105 - Sequence 515129 from Patent EP1572962.
JD288914 - Sequence 269938 from Patent EP1572962.
JD294478 - Sequence 275502 from Patent EP1572962.
JD053050 - Sequence 34074 from Patent EP1572962.
JD438691 - Sequence 419715 from Patent EP1572962.
JD291974 - Sequence 272998 from Patent EP1572962.
JD472757 - Sequence 453781 from Patent EP1572962.
JD067699 - Sequence 48723 from Patent EP1572962.
JD146400 - Sequence 127424 from Patent EP1572962.
JD402525 - Sequence 383549 from Patent EP1572962.
JD247288 - Sequence 228312 from Patent EP1572962.
JD079843 - Sequence 60867 from Patent EP1572962.
JD214345 - Sequence 195369 from Patent EP1572962.
JD442500 - Sequence 423524 from Patent EP1572962.
JD046152 - Sequence 27176 from Patent EP1572962.
JD362445 - Sequence 343469 from Patent EP1572962.
JD418603 - Sequence 399627 from Patent EP1572962.
JD390630 - Sequence 371654 from Patent EP1572962.
JD191115 - Sequence 172139 from Patent EP1572962.
JD494841 - Sequence 475865 from Patent EP1572962.
AF069736 - Homo sapiens PCAF associated factor 65 beta mRNA, complete cds.
LF205549 - JP 2014500723-A/13052: Polycomb-Associated Non-Coding RNAs.
LF346190 - JP 2014500723-A/153693: Polycomb-Associated Non-Coding RNAs.
LF346191 - JP 2014500723-A/153694: Polycomb-Associated Non-Coding RNAs.
BC041094 - Homo sapiens TAF5-like RNA polymerase II, p300/CBP-associated factor (PCAF)-associated factor, 65kDa, mRNA (cDNA clone MGC:46101 IMAGE:5551246), complete cds.
HQ448525 - Synthetic construct Homo sapiens clone IMAGE:100071960; CCSB011212_03 TAF5-like RNA polymerase II, p300/CBP-associated factor (PCAF)-associated factor, 65kDa (TAF5L) gene, encodes complete protein.
KJ898659 - Synthetic construct Homo sapiens clone ccsbBroadEn_08053 TAF5L gene, encodes complete protein.
CU691952 - Synthetic construct Homo sapiens gateway clone IMAGE:100021105 5' read TAF5L mRNA.
DQ575483 - Homo sapiens piRNA piR-43595, complete sequence.
AB464282 - Synthetic construct DNA, clone: pF1KB9675, Homo sapiens TAF5L gene for TAF5-like RNA polymerase II, p300/CBP-associated factor (PCAF)-associated factor, 65kDa, without stop codon, in Flexi system.
JD205837 - Sequence 186861 from Patent EP1572962.
JD394678 - Sequence 375702 from Patent EP1572962.
JD443506 - Sequence 424530 from Patent EP1572962.
JD180870 - Sequence 161894 from Patent EP1572962.
MA581767 - JP 2018138019-A/153693: Polycomb-Associated Non-Coding RNAs.
MA581768 - JP 2018138019-A/153694: Polycomb-Associated Non-Coding RNAs.
MA441126 - JP 2018138019-A/13052: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa03022 - Basal transcription factors

Reactome (by CSHL, EBI, and GO)

Protein O75529 (Reactome details) participates in the following event(s):

R-HSA-3301237 KAT2 complexes acetylate histone H3
R-HSA-3214847 HATs acetylate histones
R-HSA-3247509 Chromatin modifying enzymes
R-HSA-4839726 Chromatin organization

-  Other Names for This Gene
  Alternate Gene Symbols: NM_014409, NP_055224, O75529, PAF65B, Q5TDI5, Q5TDI6, Q8IW31, TAF5L_HUMAN
UCSC ID: uc001htq.3
RefSeq Accession: NM_014409
Protein: O75529 (aka TAF5L_HUMAN or TA5L_HUMAN)
CCDS: CCDS1581.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_014409.3
exon count: 5CDS single in 3' UTR: no RNA size: 3122
ORF size: 1770CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3730.00frame shift in genome: no % Coverage: 99.74
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.