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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

PRAMEF3 Gene

protein-coding   GIFtS: 36
GCID: GC01M013328

PRAME Family Member 3

  See related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
PRAME Family Member 31 2

External Ids:    HGNC: 140871   Entrez Gene: 4019402   Ensembl: ENSG000002045037   UniProtKB: Q5TYW83   

Export aliases for PRAMEF3 gene to outside databases

Previous GC identifers: GC01M013075 GC01M013200


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

GeneCards Summary for PRAMEF3 Gene: 
PRAMEF3 (PRAME family member 3) is a protein-coding gene. Diseases associated with PRAMEF3 include melanoma. GO annotations related to this gene include retinoic acid receptor binding. An important paralog of this gene is PRAMEF19.


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000001.10  NC_018912.2  NT_004610.19  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the PRAMEF3 gene promoter:
         HOXA9B   LCR-F1   Meis-1b   AREB6   PPAR-gamma1   PPAR-gamma2   TGIF   Meis-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidPRAMEF3 promoter sequence
   Search SABiosciences Chromatin IP Primers for PRAMEF3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat PRAMEF3


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 1p36.21   Ensembl cytogenetic band:  1p36.21   HGNC cytogenetic band: 1p36.21

PRAMEF3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
PRAMEF3 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M013328:  view genomic region     (about GC identifiers)

Start:
13,328,196 bp from pter      End:
13,331,692 bp from pter
Size:
3,497 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: PRAM3_HUMAN, Q5TYW8 (See protein sequence)
Recommended Name: PRAME family member 3  
Size: 479 amino acids; 55198 Da

Explore the universe of human proteins at neXtProt for PRAMEF3: NX_Q5TYW8

Explore proteomics data for PRAMEF3 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q5TYW8

  • PRAMEF3 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    PRAMEF3 Protein Expression
    REFSEQ proteins: NP_001013714.3  
    ENSEMBL proteins: 
     ENSP00000334892   ENSP00000365343  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    2 InterPro protein domains:
     IPR026292 PRAME/Leu_rich_rep-con_p14
     IPR026271 PRAME_family

    Graphical View of Domain Structure for InterPro Entry Q5TYW8

    ProtoNet protein and cluster: Q5TYW8

    UniProtKB/Swiss-Prot: PRAM3_HUMAN, Q5TYW8
    Similarity: Belongs to the PRAME family
    Similarity: Contains 2 LRR (leucine-rich) repeats


    PRAMEF3 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

         Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0042974retinoic acid receptor binding IEA--
         
    PRAMEF3 for ontologies           About GeneDecksing


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    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for PRAMEF3

    STRING Interaction Network Preview (showing 5 interactants - click image to see 7)

    5/7 Interacting proteins for PRAMEF3 (ENSP000003653434) via UniProtKB, MINT, STRING, and/or I2D (see all 7)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    DIRAS3ENSP000003600204STRING: ENSP00000360020
    ENSG00000223666ENSP000003988124STRING: ENSP00000398812
    FCRL6ENSP000003570864STRING: ENSP00000357086
    OSCP1ENSP000003490524STRING: ENSP00000349052
    PIGQENSP000000262184STRING: ENSP00000026218
    About this table

    Gene Ontology (GO): 5 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0008284positive regulation of cell proliferation IEA--
    GO:0043066negative regulation of apoptotic process IEA--
    GO:0045596negative regulation of cell differentiation IEA--
    GO:0045892negative regulation of transcription, DNA-dependent IEA--
    GO:0048387negative regulation of retinoic acid receptor signaling pathway IEA--

    PRAMEF3 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for PRAMEF3 (PRAM3)

    Search CenterWatch for drugs/clinical trials and news about PRAMEF3 / PRAM3

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
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    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for PRAMEF3 gene: 
    NM_001013692.1  

    Unigene Cluster for PRAMEF3:

    PRAME family member 3
    Hs.558935
    Unigene Representative Sequence: NM_001013692
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000353410 ENST00000376173(uc001aut.1)
    miRNA
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    Inhib. RNA
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat PRAMEF3
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat PRAMEF3

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    PRAMEF3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TGCTTTCTGT
    PRAMEF3 Expression
    About this image


    See PRAMEF3 Protein Expression from SPIRE MOPED and PaxDB
    SOURCE GeneReport for Unigene cluster: Hs.558935
        SABiosciences Custom PCR Arrays for PRAMEF3
    Primer
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PRAMEF3

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section
      --

    ENSEMBL Gene Tree for PRAMEF3 (if available)
    TreeFam Gene Tree for PRAMEF3 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for PRAMEF3 gene
    PRAMEF221 2  PRAMEF192  PRAMEF102  PRAMEF202  PRAMEF262  PRAMEF182  PRAMEF212  PRAMEF122  
    PRAMEF152  PRAMEF42  PRAMEF22  PRAMEF92  PRAMEF132  PRAME2  LRRC14B2  PRAMEF142  
    PRAMEF72  PRAMEF82  ENSG000002398102  PRAMEF172  PRAMEF52  LRRC142  PRAMEF112  PRAMEF162  
    PRAMEF12  PRAMEF62  
    18/26 SIMAP similar genes for PRAMEF3 using alignment to 2 protein entries:     PRAM3_HUMAN (see all proteins) (see all similar genes):
    PRAMEF22    PRAMEF18    PRAMEF19    PRAMEF25    PRAMEF1    PRAMEF10
    PRAMEF13    PRAMEF2    PRAMEF16    PRAMEF17    PRAMEF14    PRAMEF12
    PRAMEF24    PRAME    PRAMEF8    PRAMEF20    PRAMEF21    PRAMEF7

    PRAMEF3 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for PRAMEF3
    PGOHUM00000244605


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/36 SNPs in PRAMEF3 are shown (see all 36)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs285143281,2
    C--13328412(+) ACTCCC/TTCACT 1 -- ut310--------
    rs283786681,2
    C--13328488(+) TCAACT/CTTTTC 1 -- ut31 trp33Minor allele frequency- C:0.12NA 8
    rs285384101,2
    C--13328576(+) CTCTGC/TTCCCT 1 -- ut310--------
    rs1848398521,2
    --13332199(+) TCCAGA/CTACTC 1 -- us2k10--------
    rs2017736691,2
    C--13332331(+) ATAAAA/TAAAAT 1 -- us2k10--------
    rs2001193151,2
    C--13332625(+) ATGGAA/TGTGAT 1 -- us2k10--------
    rs712334661,2
    C--13332852(-) GAATGG/AAGTCT 1 -- us2k11Minor allele frequency- A:0.50NA 2
    rs1483316311,2
    C--13332999(+) AAAAAA/TAATAA 1 -- us2k10--------
    rs2000258131,2
    C--13333210(+) TCACTC/TGAACC 1 -- us2k10--------
    rs2022111371,2
    ----13329150(+) GCAGCA/GGCTCA 2 R C mis10--------

    HapMap Linkage Disequilibrium report for PRAMEF3 (13328196 - 13331692 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 10/15 variations for PRAMEF3 (see all 15):    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv832981CNV Loss17160897
    nsv870885CNV Loss21882294
    dgv168n71CNV Gain21882294
    nsv821616CNV Gain15273396
    nsv871634CNV Gain21882294
    dgv147n71CNV Gain21882294
    esv1000242CNV Gain20482838
    esv25471CNV Gain+Loss19812545
    nsv517190CNV Gain+Loss19592680
    nsv428410CNV Gain+Loss18775914

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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    2 diseases for PRAMEF3:    About MalaCards
    melanoma    


    PRAMEF3 for disorders           About GeneDecksing


    Export disorders for PRAMEF3 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed article for PRAMEF3 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with PRAMEF3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (2006)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 401940 HGNC: 14087 Ensembl:ENSG00000204503 euGenes: HUgn401940 ECgene: PRAMEF3
    H-InvDB: PRAMEF3

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for PRAMEF3 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for PRAMEF3 gene:
    Search GeneIP for patents involving PRAMEF3

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
    About This Section

     
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    (GIFtS: 73)
    transforming growth factor, beta 1
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