Human Gene HLA-DOA (ENST00000229829.7_7) from GENCODE V47lift37
  Description: major histocompatibility complex, class II, DO alpha (from RefSeq NM_002119.4)
Gencode Transcript: ENST00000229829.7_7
Gencode Gene: ENSG00000204252.14_12
Transcript (Including UTRs)
   Position: hg19 chr6:32,971,959-32,977,368 Size: 5,410 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr6:32,974,615-32,977,313 Size: 2,699 Coding Exon Count: 5 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6:32,971,959-32,977,368)mRNA (may differ from genome)Protein (250 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MalacardsMGIOMIMPubMedUniProtKBWikipedia
BioGrid 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: HLA-DOA
Diseases sorted by gene-association score: keshan disease (16)

-  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: 43.08 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 166.23 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 -8.7055-0.158 Picture PostScript Text
3' UTR -1036.502656-0.390 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    
 RGDEnsembl   
      
      

-  Descriptions from all associated GenBank mRNAs
  AJ420585 - Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 1964662.
M38054 - Human lymphocyte antigen mRNA, 3' flank.
JD388925 - Sequence 369949 from Patent EP1572962.
JD321290 - Sequence 302314 from Patent EP1572962.
M38055 - Human lymphocyte antigen (HLA-DN2) mRNA, 3' flank.
BC013183 - Homo sapiens major histocompatibility complex, class II, DO alpha, mRNA (cDNA clone MGC:17214 IMAGE:4340975), complete cds.
JD147896 - Sequence 128920 from Patent EP1572962.
JD497856 - Sequence 478880 from Patent EP1572962.
JD376112 - Sequence 357136 from Patent EP1572962.
AK301404 - Homo sapiens cDNA FLJ50891 complete cds, highly similar to HLA class II histocompatibility antigen, DOalpha chain precursor.
AK290714 - Homo sapiens cDNA FLJ78513 complete cds, highly similar to Homo sapiens major histocompatibility complex, class II, DO alpha(HLA-DOA), mRNA.
M26039 - Human MHC class II DN alpha mRNA, complete cds.
JD067823 - Sequence 48847 from Patent EP1572962.
JD474576 - Sequence 455600 from Patent EP1572962.
M31525 - Human MHC class II lymphocyte antigen (HLA-DNA) gene, complete cds.
JD457865 - Sequence 438889 from Patent EP1572962.
JD463632 - Sequence 444656 from Patent EP1572962.
AY947479 - Homo sapiens GRB2012722 MHC class II antigen (HLA-DOA) mRNA, complete cds.
AY947480 - Homo sapiens GRB2024705 MHC class II antigen (HLA-DOA) mRNA, complete cds.
AY947481 - Homo sapiens GRB2022544 MHC class II antigen (HLA-DOA) mRNA, complete cds.
AY947482 - Homo sapiens GRB2010154 truncated MHC class II antigen (HLA-DOA) mRNA, complete cds.
M29335 - Human MHC class II DO-alpha mRNA, partial cds.
AK310153 - Homo sapiens cDNA, FLJ17195.
CU680544 - Synthetic construct Homo sapiens gateway clone IMAGE:100023474 5' read HLA-DOA mRNA.
DQ891048 - Synthetic construct clone IMAGE:100003678; FLH168814.01X; RZPDo839D0694D major histocompatibility complex, class II, DO alpha (HLA-DOA) gene, encodes complete protein.
DQ894226 - Synthetic construct Homo sapiens clone IMAGE:100008686; FLH168810.01L; RZPDo839D0693D major histocompatibility complex, class II, DO alpha (HLA-DOA) gene, encodes complete protein.
KJ896977 - Synthetic construct Homo sapiens clone ccsbBroadEn_06371 HLA-DOA gene, encodes complete protein.
AK313551 - Homo sapiens cDNA, FLJ94111, Homo sapiens major histocompatibility complex, class II, DO alpha (HLA-DOA), mRNA.
M38056 - Human lymphocyte antigen mRNA, complete cds.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000229829.1, ENST00000229829.2, ENST00000229829.3, ENST00000229829.4, ENST00000229829.5, ENST00000229829.6, HLA-DOA , NM_002119, uc317dro.1, uc317dro.2, X5CF87, X5CF87_HUMAN
UCSC ID: ENST00000229829.7_7
RefSeq Accession: NM_002119.4

-  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.