Human Gene PRAMEF10 (uc001auo.3)
  Description: Homo sapiens PRAME family member 10 (PRAMEF10), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:12,952,727-12,958,094 Size: 5,368 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr1:12,952,747-12,955,678 Size: 2,932 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:12,952,727-12,958,094)mRNA (may differ from genome)Protein (474 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkHGNCHPRDLynxMGIneXtProt
PubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PRA10_HUMAN
DESCRIPTION: RecName: Full=PRAME family member 10;
SIMILARITY: Belongs to the PRAME family.
SIMILARITY: Contains 2 LRR (leucine-rich) repeats.
SEQUENCE CAUTION: Sequence=CAA17876.1; Type=Erroneous gene model prediction;

-  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


-  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: 0.04 RPKM in Liver
Total median expression: 0.05 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 -15.0073-0.205 Picture PostScript Text
3' UTR -1.5020-0.075 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
IPR026292 - PRAME/Leu_rich_rep-con_p14
IPR026271 - PRAME_family

SCOP Domains:
52047 - RNI-like

ModBase Predicted Comparative 3D Structure on O60809
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     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0008284 positive regulation of cell proliferation
GO:0043066 negative regulation of apoptotic process
GO:0045596 negative regulation of cell differentiation
GO:0045892 negative regulation of transcription, DNA-templated


-  Descriptions from all associated GenBank mRNAs
  BC112208 - Homo sapiens PRAME family member 10, mRNA (cDNA clone MGC:138413 IMAGE:8327676), complete cds.
BC112210 - Homo sapiens PRAME family member 10, mRNA (cDNA clone MGC:138415 IMAGE:8327678), complete cds.
KJ900650 - Synthetic construct Homo sapiens clone ccsbBroadEn_10044 PRAMEF10 gene, encodes complete protein.
AL049682 - Human gene from PAC 845O24, chromosome 1, similar to preferentially expressed antigen of melanoma.
JD079199 - Sequence 60223 from Patent EP1572962.
JD241891 - Sequence 222915 from Patent EP1572962.
JD193893 - Sequence 174917 from Patent EP1572962.
JD399778 - Sequence 380802 from Patent EP1572962.
JD227087 - Sequence 208111 from Patent EP1572962.
JD307962 - Sequence 288986 from Patent EP1572962.
JD124352 - Sequence 105376 from Patent EP1572962.
JD539770 - Sequence 520794 from Patent EP1572962.
JD143589 - Sequence 124613 from Patent EP1572962.
JD143588 - Sequence 124612 from Patent EP1572962.
JD165569 - Sequence 146593 from Patent EP1572962.
JD036562 - Sequence 17586 from Patent EP1572962.
JD555642 - Sequence 536666 from Patent EP1572962.
JD539988 - Sequence 521012 from Patent EP1572962.
JD432113 - Sequence 413137 from Patent EP1572962.
JD265566 - Sequence 246590 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_001039361, NP_001034450, O60809, PRA10_HUMAN, Q2M1V2
UCSC ID: uc001auo.3
RefSeq Accession: NM_001039361
Protein: O60809 (aka PRA10_HUMAN)
CCDS: CCDS41255.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001039361.3
exon count: 4CDS single in 3' UTR: no RNA size: 1518
ORF size: 1425CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2932.00frame shift in genome: no % Coverage: 100.00
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.