Human Gene BC062324 (uc003rtl.2)
  Description: Homo sapiens cDNA clone MGC:71446 IMAGE:5420082, complete cds.
RefSeq Summary (NR_024240): This major histocompatibility complex gene represents a transcribed pseudogene, possibly derived from HLA-A. [provided by RefSeq, May 2010].
Transcript (Including UTRs)
   Position: hg18 chr6_qbl_hap2:1,221,237-1,224,482 Size: 3,246 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg18 chr6_qbl_hap2:1,222,963-1,224,263 Size: 1,301 Coding Exon Count: 4 

Page IndexSequence and LinksPrimersMicroarray ExpressionRNA StructureOther Species
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2009-03-03

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6_qbl_hap2:1,221,237-1,224,482)mRNA (may differ from genome)Protein (143 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaBioGPSExonPrimer
GeneCardsMGIPubMed

-  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


-  Microarray Expression Data
 
Expression ratio colors:

GNF Expression Atlas 2 Data from U133A and GNF1H Chips

      
      
      
     
    
     
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -84.20207-0.407 Picture PostScript Text
3' UTR -56.20219-0.257 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
      
      
      
      
      

-  Descriptions from all associated GenBank mRNAs
  M12758 - Human MHC class I HLA-A24 glycoprotein mRNA (exons 4,6-8), clone 1.
M27539 - Human MHC class I HLA-A cell surface antigen mRNA, (HLA-A28,-B40, -Cw3), clone LB45.
BC089454 - Homo sapiens major histocompatibility complex, class I, J (pseudogene), mRNA (cDNA clone IMAGE:30563285).
BC020891 - Homo sapiens major histocompatibility complex, class I, J (pseudogene), mRNA (cDNA clone IMAGE:4694038).
BC062324 - Homo sapiens major histocompatibility complex, class I, J (pseudogene), mRNA (cDNA clone IMAGE:5420082).
JD470849 - Sequence 451873 from Patent EP1572962.
JD197090 - Sequence 178114 from Patent EP1572962.
JD153365 - Sequence 134389 from Patent EP1572962.
MA869140 - JP 2018536436-A/976: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
MA870225 - JP 2018536436-A/2061: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
MA869141 - JP 2018536436-A/977: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
MA869142 - JP 2018536436-A/978: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
MA869325 - JP 2018536436-A/1161: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
MA870040 - JP 2018536436-A/1876: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
MA869326 - JP 2018536436-A/1162: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
MA870039 - JP 2018536436-A/1875: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
MA869327 - JP 2018536436-A/1163: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
MA869334 - JP 2018536436-A/1170: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
MA869335 - JP 2018536436-A/1171: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
MA870033 - JP 2018536436-A/1869: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
MA869336 - JP 2018536436-A/1172: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
MA869450 - JP 2018536436-A/1286: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
MA869451 - JP 2018536436-A/1287: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
MA869452 - JP 2018536436-A/1288: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
MA869465 - JP 2018536436-A/1301: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
MA869901 - JP 2018536436-A/1737: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
LY591552 - KR 1020180133840-A/976: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
LY592637 - KR 1020180133840-A/2061: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
LY591553 - KR 1020180133840-A/977: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
LY591554 - KR 1020180133840-A/978: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
LY591737 - KR 1020180133840-A/1161: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
LY592452 - KR 1020180133840-A/1876: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
LY591738 - KR 1020180133840-A/1162: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
LY592451 - KR 1020180133840-A/1875: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
LY591739 - KR 1020180133840-A/1163: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
LY591746 - KR 1020180133840-A/1170: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
LY591747 - KR 1020180133840-A/1171: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
LY592445 - KR 1020180133840-A/1869: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
LY591748 - KR 1020180133840-A/1172: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
LY591862 - KR 1020180133840-A/1286: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
LY591863 - KR 1020180133840-A/1287: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
LY591864 - KR 1020180133840-A/1288: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
LY591877 - KR 1020180133840-A/1301: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.
LY592313 - KR 1020180133840-A/1737: COMPOSITIONS AND METHODS FOR IMMUNOONCOLOGY.

-  Other Names for This Gene
  Alternate Gene Symbols: uc003rtl.1
UCSC ID: uc003rtl.2
RefSeq Accession: NR_024240

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: BC062324.1
exon count: 5CDS single in 3' UTR: no RNA size: 876
ORF size: 432CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 800.00frame shift in genome: no % Coverage: 97.95
has start codon: yes stop codon in genome: no # of Alignments: 2
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.