Human Gene PRAMEF3 (uc001aut.1)
  Description: Homo sapiens PRAME family member 3 (PRAMEF3), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:13,328,196-13,331,692 Size: 3,497 Total Exon Count: 3 Strand: -
Coding Region
   Position: hg19 chr1:13,328,833-13,331,671 Size: 2,839 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:13,328,196-13,331,692)mRNA (may differ from genome)Protein (481 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblEntrez GeneExonPrimerGeneCardsHGNCLynx
MGIneXtProtPubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PRA22_HUMAN
DESCRIPTION: RecName: Full=PRAME family member 22;
SIMILARITY: Belongs to the PRAME family.
SIMILARITY: Contains 2 LRR (leucine-rich) repeats.
CAUTION: It is uncertain whether Met-1 or Met-3 is the initiator.

-  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


+  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: 0.00 RPKM in Adipose - Subcutaneous
Total median expression: 0.00 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 -3.9021-0.186 Picture PostScript Text
3' UTR -199.61637-0.313 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
52058 - L domain-like
52075 - Outer arm dynein light chain 1

ModBase Predicted Comparative 3D Structure on A3QJZ6
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
  JD328739 - Sequence 309763 from Patent EP1572962.
JD441272 - Sequence 422296 from Patent EP1572962.
BC153056 - Synthetic construct Homo sapiens clone IMAGE:100016326, MGC:184282 PRAME family member 3 (PRAMEF3) mRNA, encodes complete protein.
BC148460 - Synthetic construct Homo sapiens clone IMAGE:100015415, MGC:183026 PRAME family member 3 (PRAMEF3) mRNA, encodes complete protein.
AB464060 - Synthetic construct DNA, clone: pF1KB7425, Homo sapiens PRAMEF3 gene for PRAME family member 3, without stop codon, in Flexi system.

-  Other Names for This Gene
  Alternate Gene Symbols: A3QJZ6, A6NMM3, NM_001100631, NP_001013714, PRA22_HUMAN, PRAMEF22
UCSC ID: uc001aut.1
RefSeq Accession: NM_001100631
Protein: A3QJZ6 (aka PRA22_HUMAN)

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001100631.1
exon count: 3CDS single in 3' UTR: no RNA size: 1446
ORF size: 1446CDS single in intron: no Alignment % ID: 99.86
txCdsPredict score: 3077.00frame shift in genome: no % Coverage: 100.00
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.