Human Gene HLA-H (uc011gqo.2) Description and Page Index
  Description: Homo sapiens major histocompatibility complex, class I, H (pseudogene) (HLA-H), non-coding RNA.
RefSeq Summary (NR_001434): This major histocompatibility complex gene represents a transcribed pseudogene, possibly derived from HLA-A. This gene displays extensive variation. [provided by RefSeq, May 2010]. Sequence Note: The RefSeq transcript was derived from the reference genome assembly. The genomic coordinates were determined from alignments. ##Evidence-Data-START## RNAseq introns :: mixed/partial sample support ERS025093 [ECO:0000350] ##Evidence-Data-END##
Transcript (Including UTRs)
   Position: chr6_mann_hap4:1,149,678-1,151,662 Size: 1,985 Total Exon Count: 3 Strand: +
Coding Region
   Position: chr6_mann_hap4:1,149,824-1,151,038 Size: 1,215 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDRNA Structure
Protein StructureOther SpeciesmRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

+  Sequence and Links to Tools and Databases
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-  Comments and Description Text from UniProtKB
DESCRIPTION: SubName: Full=cDNA FLJ52667, highly similar to HLA class I histocompatibility antigen, alpha chain H;
SIMILARITY: Belongs to the MHC class I family.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database: HLA-H
CDC HuGE Published Literature: HLA-H

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

-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -41.82146-0.286 Picture PostScript Text
3' UTR -254.30624-0.408 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
IPR011161 - MHC_I-like_Ag-recog
IPR011162 - MHC_I/II-like_Ag-recog
IPR027648 - MHC_I_a
IPR001039 - MHC_I_a_a1/a2

Pfam Domains:
PF00129 - Class I Histocompatibility antigen, domains alpha 1 and 2

SCOP Domains:
54452 - MHC antigen-recognition domain

ModBase Predicted Comparative 3D Structure on B4DT05
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

-  Descriptions from all associated GenBank mRNAs
  M27971 - Human MHC class I HLA-ABC mRNA, 3' end.
AK299998 - Homo sapiens cDNA FLJ52667 complete cds, highly similar to HLA class I histocompatibility antigen, alpha chain H precursor.
AK090500 - Homo sapiens cDNA FLJ33181 fis, clone ADRGL2003684, highly similar to HLA class I histocompatibility antigen, alpha chain H precursor.
AX746483 - Sequence 8 from Patent EP1308459.
AK308374 - Homo sapiens cDNA, FLJ98322.
AK309480 - Homo sapiens cDNA, FLJ99521.
AK293556 - Homo sapiens cDNA FLJ53543 complete cds, moderately similar to HLA class I histocompatibility antigen, alpha chain H precursor.
AK309163 - Homo sapiens cDNA, FLJ99204.
AK300878 - Homo sapiens cDNA FLJ53565 complete cds, moderately similar to HLA class I histocompatibility antigen, alpha chain H precursor.

-  Other Names for This Gene
  Alternate Gene Symbols: AK308374, B4DT05, B4DT05_HUMAN
UCSC ID: uc011gqo.2
RefSeq Accession: NR_001434
Protein: B4DT05

-  Gene Model Information
category: coding nonsense-mediated-decay: no RNA accession: AK308374.1
exon count: 3CDS single in 3' UTR: no RNA size: 1052
ORF size: 849CDS single in intron: no Alignment % ID: 98.75
txCdsPredict score: 1672.00frame shift in genome: no % Coverage: 99.24
has start codon: yes stop codon in genome: no # of Alignments: 8
has end codon: yes retained intron: yes # 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.