Human Gene HDAC4 (ENST00000543185.6_10) from GENCODE V47lift37
  Description: histone deacetylase 4, transcript variant 3 (from RefSeq NM_001378415.1)
Gencode Transcript: ENST00000543185.6_10
Gencode Gene: ENSG00000068024.18_14
Transcript (Including UTRs)
   Position: hg19 chr2:239,969,864-240,322,714 Size: 352,851 Total Exon Count: 27 Strand: -
Coding Region
   Position: hg19 chr2:239,974,793-240,274,394 Size: 299,602 Coding Exon Count: 26 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureOther SpeciesmRNA DescriptionsPathways
Other NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:239,969,864-240,322,714)mRNA (may differ from genome)Protein (1089 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: HDAC4
Diseases sorted by gene-association score: chromosome 2q37 deletion syndrome* (625), 2q37 microdeletion syndrome* (100), developmental dyspraxia (18), brachydactyly, type e (16), brachydactyly (15), muscle hypertrophy (13), neuronal intranuclear inclusion disease (7), pseudohypoparathyroidism ia (7), breast cancer (2), autism spectrum disorder (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 19.59 RPKM in Colon - Sigmoid
Total median expression: 225.99 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 -85.00262-0.324 Picture PostScript Text
3' UTR -1623.204929-0.329 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.

-  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 DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Descriptions from all associated GenBank mRNAs
  LF383625 - JP 2014500723-A/191128: Polycomb-Associated Non-Coding RNAs.
AB006626 - Homo sapiens KIAA0288 mRNA for KIAA0288 protein.
BC039904 - Homo sapiens histone deacetylase 4, mRNA (cDNA clone MGC:47583 IMAGE:6067363), complete cds.
AF132607 - Homo sapiens histone deacetylase 4 mRNA, complete cds.
AB384455 - Synthetic construct DNA, clone: pF1KA0288, Homo sapiens HDAC4 gene for histone deacetylase 4, complete cds, without stop codon, in Flexi system.
AK310603 - Homo sapiens cDNA, FLJ17645.
AK308791 - Homo sapiens cDNA, FLJ98832.
AK303368 - Homo sapiens cDNA FLJ51174 complete cds, highly similar to Histone deacetylase 4.
MA619202 - JP 2018138019-A/191128: Polycomb-Associated Non-Coding RNAs.
AK302719 - Homo sapiens cDNA FLJ51157 complete cds, highly similar to Histone deacetylase 4.
CU691798 - Synthetic construct Homo sapiens gateway clone IMAGE:100021031 5' read HDAC4 mRNA.
AF070607 - Homo sapiens clone 24625 mRNA sequence.
JD080055 - Sequence 61079 from Patent EP1572962.
JD513108 - Sequence 494132 from Patent EP1572962.
JD327959 - Sequence 308983 from Patent EP1572962.
JD340340 - Sequence 321364 from Patent EP1572962.
JD402919 - Sequence 383943 from Patent EP1572962.
JD152084 - Sequence 133108 from Patent EP1572962.
JD299316 - Sequence 280340 from Patent EP1572962.
JD301065 - Sequence 282089 from Patent EP1572962.
HV444941 - JP 2011515407-A/15: IDENTIFICATION OF MICRO-RNAS INVOLVED IN NEUROMUSCULAR SYNAPSE MAINTENANCE AND REGENERATION.
HW798562 - JP 2014237689-A/15: IDENTIFICATION OF MICRO-RNAS INVOLVED IN NEUROMUSCULAR SYNAPSE MAINTENANCE AND REGENERATION.
JA084315 - Sequence 15 from Patent EP2265291.
JD247960 - Sequence 228984 from Patent EP1572962.
HV444936 - JP 2011515407-A/10: IDENTIFICATION OF MICRO-RNAS INVOLVED IN NEUROMUSCULAR SYNAPSE MAINTENANCE AND REGENERATION.
HW798557 - JP 2014237689-A/10: IDENTIFICATION OF MICRO-RNAS INVOLVED IN NEUROMUSCULAR SYNAPSE MAINTENANCE AND REGENERATION.
JA084310 - Sequence 10 from Patent EP2265291.
JD140935 - Sequence 121959 from Patent EP1572962.
JD310605 - Sequence 291629 from Patent EP1572962.
JD369853 - Sequence 350877 from Patent EP1572962.
JD525097 - Sequence 506121 from Patent EP1572962.
JD288413 - Sequence 269437 from Patent EP1572962.
JD275232 - Sequence 256256 from Patent EP1572962.
JD082549 - Sequence 63573 from Patent EP1572962.
JD526795 - Sequence 507819 from Patent EP1572962.
JD454056 - Sequence 435080 from Patent EP1572962.
JD098068 - Sequence 79092 from Patent EP1572962.
JD274615 - Sequence 255639 from Patent EP1572962.
JD466720 - Sequence 447744 from Patent EP1572962.
JD416822 - Sequence 397846 from Patent EP1572962.
JD327311 - Sequence 308335 from Patent EP1572962.
JD348095 - Sequence 329119 from Patent EP1572962.
JD451282 - Sequence 432306 from Patent EP1572962.
JD486165 - Sequence 467189 from Patent EP1572962.
JD473083 - Sequence 454107 from Patent EP1572962.
JD394355 - Sequence 375379 from Patent EP1572962.
JD300861 - Sequence 281885 from Patent EP1572962.
JD473451 - Sequence 454475 from Patent EP1572962.
JD453826 - Sequence 434850 from Patent EP1572962.
JD269799 - Sequence 250823 from Patent EP1572962.
JD234436 - Sequence 215460 from Patent EP1572962.
JD241618 - Sequence 222642 from Patent EP1572962.
JD297943 - Sequence 278967 from Patent EP1572962.
JD289813 - Sequence 270837 from Patent EP1572962.
JD410377 - Sequence 391401 from Patent EP1572962.
JD416462 - Sequence 397486 from Patent EP1572962.
JD357768 - Sequence 338792 from Patent EP1572962.
JD091935 - Sequence 72959 from Patent EP1572962.
JD482185 - Sequence 463209 from Patent EP1572962.
JD273397 - Sequence 254421 from Patent EP1572962.
JD134527 - Sequence 115551 from Patent EP1572962.
JD305145 - Sequence 286169 from Patent EP1572962.
JD057290 - Sequence 38314 from Patent EP1572962.
JD260102 - Sequence 241126 from Patent EP1572962.
JD471012 - Sequence 452036 from Patent EP1572962.
JD437812 - Sequence 418836 from Patent EP1572962.
JD501159 - Sequence 482183 from Patent EP1572962.
JD167789 - Sequence 148813 from Patent EP1572962.
JD412974 - Sequence 393998 from Patent EP1572962.
JD278325 - Sequence 259349 from Patent EP1572962.
JD194450 - Sequence 175474 from Patent EP1572962.
JD214566 - Sequence 195590 from Patent EP1572962.
JD290475 - Sequence 271499 from Patent EP1572962.
JD500803 - Sequence 481827 from Patent EP1572962.
JD416638 - Sequence 397662 from Patent EP1572962.
JD393584 - Sequence 374608 from Patent EP1572962.
AK303467 - Homo sapiens cDNA FLJ59806 complete cds, highly similar to Histone deacetylase 4.
AK303617 - Homo sapiens cDNA FLJ51177 complete cds, highly similar to Histone deacetylase 4.
AK310488 - Homo sapiens cDNA, FLJ17530.
AK311582 - Homo sapiens cDNA, FLJ18624.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_ranbp2Pathway - Sumoylation by RanBP2 Regulates Transcriptional Repression
h_carm-erPathway - CARM1 and Regulation of the Estrogen Receptor

-  Other Names for This Gene
  Alternate Gene Symbols: A0A7I2SVS4, A0A7I2SVS4_HUMAN, ENST00000543185.1, ENST00000543185.2, ENST00000543185.3, ENST00000543185.4, ENST00000543185.5, HDAC4 , NM_001378415, uc324umk.1, uc324umk.2
UCSC ID: ENST00000543185.6_10
RefSeq Accession: NM_001378414.1

-  Gene Model Information
  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.