Human Gene C4orf36 (uc003hqe.4) Description and Page Index
  Description: Homo sapiens chromosome 4 open reading frame 36 (C4orf36), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr4:87,797,358-87,813,575 Size: 16,218 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr4:87,808,913-87,812,673 Size: 3,761 Coding Exon Count: 3 

Page IndexSequence and LinksGenetic AssociationsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther Names
Model InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr4:87,797,358-87,813,575)mRNA (may differ from genome)Protein (117 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaBioGPSCGAP
EnsemblEntrez GeneExonPrimerGeneCardsGeneNetworkH-INV
HGNCHPRDLynxMGIneXtProtPubMed
Stanford SOURCETreefamUniProtKB

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): C4orf36
CDC HuGE Published Literature: C4orf36
Positive Disease Associations: Amyotrophic Lateral Sclerosis , Echocardiography
Related Studies:
  1. Amyotrophic Lateral Sclerosis
    Lydia Coulter Kwee et al. PloS one 2012, A high-density genome-wide association screen of sporadic ALS in US veterans., PloS one. [PubMed 22470424]
  2. Echocardiography
    Ramachandran S Vasan et al. BMC medical genetics 2007, Genome-wide association of echocardiographic dimensions, brachial artery endothelial function and treadmill exercise responses in the Framingham Heart Study., BMC medical genetics. [PubMed 17903301]
    In hypothesis-generating GWAS of echocardiography, ETT and BA vascular function in a moderate-sized community-based sample, we identified several SNPs that are candidates for replication attempts and we provide a web-based GWAS resource for the research community.

-  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: 3.81 RPKM in Testis
Total median expression: 32.68 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -139.80313-0.447 Picture PostScript Text
3' UTR -75.60241-0.314 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:
PF15022 - Protein of unknown function (DUF4522)

ModBase Predicted Comparative 3D Structure on Q96KX1
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
  AK057662 - Homo sapiens cDNA FLJ33100 fis, clone TRACH2000873.
BC016746 - Homo sapiens chromosome 4 open reading frame 36, mRNA (cDNA clone MGC:26744 IMAGE:4827131), complete cds.
JD321568 - Sequence 302592 from Patent EP1572962.
JD396590 - Sequence 377614 from Patent EP1572962.
JD458981 - Sequence 440005 from Patent EP1572962.
JD406962 - Sequence 387986 from Patent EP1572962.
BC063410 - Homo sapiens cDNA clone IMAGE:5210255, partial cds.
KJ895487 - Synthetic construct Homo sapiens clone ccsbBroadEn_04881 C4orf36 gene, encodes complete protein.
JD331318 - Sequence 312342 from Patent EP1572962.
JD181350 - Sequence 162374 from Patent EP1572962.
JD078077 - Sequence 59101 from Patent EP1572962.
JD141694 - Sequence 122718 from Patent EP1572962.
JD541857 - Sequence 522881 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: CD036_HUMAN, NM_144645, NP_653246, Q96KX1
UCSC ID: uc003hqe.4
RefSeq Accession: NM_144645
Protein: Q96KX1 (aka CD036_HUMAN)
CCDS: CCDS3615.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_144645.3
exon count: 5CDS single in 3' UTR: no RNA size: 922
ORF size: 354CDS single in intron: no Alignment % ID: 99.89
txCdsPredict score: 893.00frame shift in genome: no % Coverage: 98.48
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.