Human Gene HDAC7 (uc010slo.2) Description and Page Index
  Description: Homo sapiens histone deacetylase 7 (HDAC7), transcript variant 1, mRNA.
RefSeq Summary (NM_015401): Histones play a critical role in transcriptional regulation, cell cycle progression, and developmental events. Histone acetylation/deacetylation alters chromosome structure and affects transcription factor access to DNA. The protein encoded by this gene has sequence homology to members of the histone deacetylase family. This gene is orthologous to mouse HDAC7 gene whose protein promotes repression mediated via the transcriptional corepressor SMRT. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008].
Transcript (Including UTRs)
   Position: hg19 chr12:48,176,507-48,213,763 Size: 37,257 Total Exon Count: 26 Strand: -
Coding Region
   Position: hg19 chr12:48,177,624-48,213,568 Size: 35,945 Coding Exon Count: 26 

Page IndexSequence and LinksGenetic AssociationsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsPathways
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:48,176,507-48,213,763)mRNA (may differ from genome)Protein (991 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
OMIMPubMedReactomeStanford SOURCETreefamUniProtKB
Wikipedia

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): HDAC7
CDC HuGE Published Literature: HDAC7

-  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: 32.74 RPKM in Uterus
Total median expression: 886.06 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 -77.30195-0.396 Picture PostScript Text
3' UTR -450.401117-0.403 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
  Pfam Domains:
PF00850 - Histone deacetylase domain

SCOP Domains:
52768 - Arginase/deacetylase

ModBase Predicted Comparative 3D Structure on Q8WUI4-5
FrontTopSide
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 orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

-  Descriptions from all associated GenBank mRNAs
  AK225910 - Homo sapiens mRNA for histone deacetylase 7A isoform a variant, clone: FCC119B01.
AK026767 - Homo sapiens cDNA: FLJ23114 fis, clone LNG07880.
BC006453 - Homo sapiens histone deacetylase 7, mRNA (cDNA clone IMAGE:4054348), partial cds.
BC020505 - Homo sapiens histone deacetylase 7, mRNA (cDNA clone IMAGE:3851375), partial cds.
AL117455 - Homo sapiens mRNA; cDNA DKFZp586J0917 (from clone DKFZp586J0917); partial cds.
BC064840 - Homo sapiens histone deacetylase 7, mRNA (cDNA clone MGC:74915 IMAGE:6179239), complete cds.
AK001032 - Homo sapiens cDNA FLJ10170 fis, clone HEMBA1003690, weakly similar to HISTONE DEACETYLASE HDA1.
AK122588 - Homo sapiens mRNA for FLJ00413 protein.
AK128383 - Homo sapiens cDNA FLJ46526 fis, clone THYMU3034671, highly similar to Histone deacetylase 7a.
AK001190 - Homo sapiens cDNA FLJ10328 fis, clone NT2RM2000588, weakly similar to HISTONE DEACETYLASE HDA1.
AK024469 - Homo sapiens mRNA for FLJ00062 protein, partial cds.
AY321367 - Homo sapiens histone deacetylase 7A variant 3 (HDAC7A) mRNA, complete cds.
AK027781 - Homo sapiens cDNA FLJ14875 fis, clone PLACE1002816, weakly similar to HISTONE DEACETYLASE HDA1.
JD439390 - Sequence 420414 from Patent EP1572962.
JD544486 - Sequence 525510 from Patent EP1572962.
JD426400 - Sequence 407424 from Patent EP1572962.
JD218921 - Sequence 199945 from Patent EP1572962.
JD077680 - Sequence 58704 from Patent EP1572962.
JD115203 - Sequence 96227 from Patent EP1572962.
JD320185 - Sequence 301209 from Patent EP1572962.
JD259793 - Sequence 240817 from Patent EP1572962.
JD391981 - Sequence 373005 from Patent EP1572962.
JD401470 - Sequence 382494 from Patent EP1572962.
JD414079 - Sequence 395103 from Patent EP1572962.
JD243325 - Sequence 224349 from Patent EP1572962.
JD043923 - Sequence 24947 from Patent EP1572962.
JD485414 - Sequence 466438 from Patent EP1572962.
JD564888 - Sequence 545912 from Patent EP1572962.
JD159789 - Sequence 140813 from Patent EP1572962.
JD137954 - Sequence 118978 from Patent EP1572962.
JD076887 - Sequence 57911 from Patent EP1572962.
JD314009 - Sequence 295033 from Patent EP1572962.
JD426527 - Sequence 407551 from Patent EP1572962.
AK303481 - Homo sapiens cDNA FLJ56194 complete cds, highly similar to Histone deacetylase 7a.
AF239243 - Homo sapiens histone deacetylase 7 (HDAC7) mRNA, complete cds.
AK301545 - Homo sapiens cDNA FLJ59774 complete cds, highly similar to Histone deacetylase 7a.
JD473327 - Sequence 454351 from Patent EP1572962.
AK299292 - Homo sapiens cDNA FLJ56143 complete cds, highly similar to Histone deacetylase 7a.
AY302468 - Homo sapiens histone deacetylase (HDAC7) mRNA, complete cds.
KJ902604 - Synthetic construct Homo sapiens clone ccsbBroadEn_11998 HDAC7 gene, encodes complete protein.
BT009771 - Homo sapiens histone deacetylase 7A mRNA, complete cds.
AB489177 - Synthetic construct DNA, clone: pF1KB0470, Homo sapiens HDAC7 gene for histone deacetylase 7, without stop codon, in Flexi system.
AK309547 - Homo sapiens cDNA, FLJ99588.
JD270685 - Sequence 251709 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_ranbp2Pathway - Sumoylation by RanBP2 Regulates Transcriptional Repression
h_MITRPathway - Signal Dependent Regulation of Myogenesis by Corepressor MITR

Reactome (by CSHL, EBI, and GO)

Protein Q8WUI4 (Reactome details) participates in the following event(s):

R-HSA-1912388 NICD1 displaces co-repressor complex from RBPJ (CSL)
R-HSA-2220982 NICD1 PEST domain mutants displace co-repressor complex from RBPJ (CSL)
R-HSA-3000383 UBE2I, HDAC7 SUMOylate PML with SUMO1
R-HSA-6807077 NR2E1 associated with transcription repressors binds PTEN promoter
R-HSA-2122947 NOTCH1 Intracellular Domain Regulates Transcription
R-HSA-2644606 Constitutive Signaling by NOTCH1 PEST Domain Mutants
R-HSA-2894862 Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants
R-HSA-3108214 SUMOylation of DNA damage response and repair proteins
R-HSA-1980143 Signaling by NOTCH1
R-HSA-2644602 Signaling by NOTCH1 PEST Domain Mutants in Cancer
R-HSA-2894858 Signaling by NOTCH1 HD+PEST Domain Mutants in Cancer
R-HSA-3108232 SUMO E3 ligases SUMOylate target proteins
R-HSA-8943724 Regulation of PTEN gene transcription
R-HSA-157118 Signaling by NOTCH
R-HSA-2644603 Signaling by NOTCH1 in Cancer
R-HSA-2990846 SUMOylation
R-HSA-6807070 PTEN Regulation
R-HSA-162582 Signal Transduction
R-HSA-5663202 Diseases of signal transduction
R-HSA-597592 Post-translational protein modification
R-HSA-1257604 PIP3 activates AKT signaling
R-HSA-1643685 Disease
R-HSA-392499 Metabolism of proteins
R-HSA-9006925 Intracellular signaling by second messengers

-  Other Names for This Gene
  Alternate Gene Symbols: HDAC7A, NM_015401, NP_056216, Q8WUI4-5
UCSC ID: uc010slo.2
RefSeq Accession: NM_015401
Protein: Q8WUI4-5, splice isoform of Q8WUI4 CCDS: CCDS8756.2, CCDS41776.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_015401.3
exon count: 26CDS single in 3' UTR: no RNA size: 4301
ORF size: 2976CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4487.00frame shift in genome: no % Coverage: 99.70
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.