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PRAMEF11 Gene

protein-coding   GIFtS: 37
GCID: GC01M012884

PRAME Family Member 11

  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)
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Aliases
PRAME Family Member 111 2

External Ids:    HGNC: 140861   Entrez Gene: 4405602   Ensembl: ENSG000002045137   UniProtKB: O608133   

Export aliases for PRAMEF11 gene to outside databases

Previous GC identifers: GC01M012821 GC01M012822 GC01U901232 GC01P013515


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for PRAMEF11 Gene:
PRAMEF11 (PRAME family member 11) is a protein-coding gene. Diseases associated with PRAMEF11 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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000001.11  NT_032977.10  NC_018912.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the PRAMEF11 gene promoter:
         Pbx1a   Brachyury   FOXO3   POU3F2   LCR-F1   GATA-1   Evi-1   YY1   FOXO3b   FOXO3a   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat PRAMEF11


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

PRAMEF11 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
PRAMEF11 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M012884:  view genomic region     (about GC identifiers)

Start:
12,884,468 bp from pter      End:
12,891,264 bp from pter
Size:
6,797 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: PRA11_HUMAN, O60813 (See protein sequence)
Recommended Name: PRAME family member 11  
Size: 436 amino acids; 50643 Da
Sequence caution: Sequence=CAA17880.1; Type=Erroneous gene model prediction;

Explore the universe of human proteins at neXtProt for PRAMEF11: NX_O60813

Explore proteomics data for PRAMEF11 at MOPED


See PRAMEF11 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_001139816.1  
ENSEMBL proteins: 
 ENSP00000391839   ENSP00000439551  

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

Graphical View of Domain Structure for InterPro Entry O60813

ProtoNet protein and cluster: O60813

1 Blocks protein domain: IPB013101 Leucine-rich repeat 2

UniProtKB/Swiss-Prot: PRA11_HUMAN, O60813
Similarity: Belongs to the PRAME family
Similarity: Contains 6 LRR (leucine-rich) repeats


PRAMEF11 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,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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     Gene Ontology (GO): 1 molecular function term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0042974retinoic acid receptor binding IEA--
     
PRAMEF11 for ontologies           About GeneDecksing


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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
cytosol2
mitochondrion2
peroxisome2

(SuperPaths according to PathCards, Pathways according to 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 QIAGEN, 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 Apr 2014 via Entrez Gene).
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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for PRAMEF11
Interactions:

    Search GeneGlobe Interaction Network for PRAMEF11

Gene Ontology (GO): 5 biological process terms:    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-templated IEA--
GO:0048387negative regulation of retinoic acid receptor signaling pathway IEA--

PRAMEF11 for ontologies           About GeneDecksing



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Tocris compounds for PRAMEF11 (PRA11)



(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,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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REFSEQ mRNAs for PRAMEF11 gene: 
NM_001146344.1  

Unigene Cluster for PRAMEF11:

PRAME family member 11
Hs.551617
Unigene Representative Sequence: NM_001098376
2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000437584 ENST00000535591(uc001auk.2)
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Additional mRNA sequence: 

AL049680.1 AL049681.1 BC144426.1 

1 DOTS entry:

DT.121407864 

4 AceView cDNA sequences:

AL049680 BV170925 BV198029 BV171930 

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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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PRAMEF11 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GATGGTTGTA
PRAMEF11 Expression
About this image

PRAMEF11 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

PRAMEF11 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.551617
    Custom PCR Arrays for PRAMEF11
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In Situ
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(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)
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ENSEMBL Gene Tree for PRAMEF11 (if available)
TreeFam Gene Tree for PRAMEF11 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for PRAMEF11 gene
PRAMEF192  PRAMEF102  PRAMEF32  PRAMEF202  PRAMEF262  PRAMEF182  PRAMEF212  PRAMEF122  
PRAMEF152  PRAMEF222  PRAMEF42  PRAMEF22  PRAMEF132  PRAMEF92  PRAME2  LRRC14B2  
PRAMEF142  PRAMEF72  PRAMEF82  ENSG000002398102  PRAMEF172  PRAMEF52  LRRC142  PRAMEF162  
PRAMEF12  PRAMEF62  
Selected SIMAP similar genes for PRAMEF11 using alignment to 2 protein entries:     PRA11_HUMAN (see all proteins) (see all similar genes):
PRAMEF15    PRAMEF9    PRAMEF26    PRAMEF4    PRAMEF5    PRAMEF6
PRAMEF23    PRAMEF20    PRAMEF21    PRAMEF25    PRAMEF24    PRAMEF8
PRAMEF7    PRAMEF12    PRAME    PRAMEF13    PRAMEF22    PRAMEF18

PRAMEF11 for paralogs           About GeneDecksing



(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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for PRAMEF11 (see all 540)    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 1 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs2002484821,2
Cuntested112887224(+) TTCTGC/TTCTGG 2 E syn11Minor allele frequency- T:0.00EU 591
rs2014118601,2
Cuntested112887227(+) TGCTCT/CGGGGA 2 /P syn11Minor allele frequency- C:0.00EU 593
rs1999166811,2
Cuntested112887591(+) TCCTCT/ATGGCA 2 /K /M mis11Minor allele frequency- A:0.00EU 593
rs2010157951,2
Cuntested112887600(+) CATTGA/GGGAAG 2 P L mis11Minor allele frequency- G:0.00EU 591
rs2021227331,2
Cuntested112887609(+) AGCACC/TCATGG 2 E G mis11Minor allele frequency- T:0.00EU 593
rs2013980731,2
Cuntested112887620(+) GCCATA/GGCTTC 2 A syn11Minor allele frequency- G:0.00EU 593
rs709774991,2
C--12883970(+) CAAAAACAAAA/-
        
GCCTG
1 -- cds11Minor allele frequency- -:0.00NA 2
rs48461741,2
C,A--12884148(+) catgcT/Ctgtaa 1 -- ds50012Minor allele frequency- C:0.00NA 4
rs48461751,2
C,A--12884149(+) atgctT/Agtaat 1 -- ds50012Minor allele frequency- A:0.00NA 4
rs286858571,2
F--12884220(+) CAGCTG/CAGATG 1 -- ds50012Minor allele frequency- C:0.00NA 4

HapMap Linkage Disequilibrium report for PRAMEF11 (12884468 - 12891264 bp)

Structural Variations
     Database of Genomic Variants (DGV) Selected variations for PRAMEF11 (see all 57):    About this table    
Variant IDTypeSubtypePubMed ID
dgv16e201CNV Deletion23290073
esv2743853CNV Deletion23290073
esv2669351CNV Deletion23128226
nsv821559CNV Duplication20802225
dgv15n67CNV Loss20364138
dgv1n64CNV Loss17921354
dgv8n27CNV Loss19166990
nsv871956CNV Loss21882294
nsv433182CNV Loss18776910
dgv151n71CNV Loss21882294

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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1 disease for PRAMEF11:    
About MalaCards
melanoma


PRAMEF11 for disorders           About GeneDecksing


Export disorders for PRAMEF11 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)
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PubMed articles for PRAMEF11 gene integrated from 10 sources:
(articles sorted by number of sources associating them with PRAMEF11)
    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. (Nature 2006)
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

(in PubMed, OMIM, and NCBI Bookshelf)
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 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)
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Entrez Gene: 440560 HGNC: 14086 AceView: LOC440560 Ensembl:ENSG00000204513 euGenes: HUgn440560
ECgene: PRAMEF11 H-InvDB: PRAMEF11

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for PRAMEF11 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for PRAMEF11 gene:
Search GeneIP for patents involving PRAMEF11

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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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Developed at the Crown Human Genome Center, Department of Molecular Genetics, the Weizmann Institute of Science

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