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PRDM2 Gene

protein-coding   GIFtS: 60
GCID: GC01P014026

PR Domain Containing 2, With ZNF Domain

  See PRDM2-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
PR Domain Containing 2, With ZNF Domain1 2     KMT82 3
MTE-Binding Protein1 2 3     MTB-ZF2 3
Retinoblastoma Protein-Interacting Zinc Finger Protein1 2 3     GATA-3-Binding Protein G3B2 3
RIZ2 3 5     PR Domain-Containing Protein 22 3
GATA-3 Binding Protein G3B1 2     HUMHOXY12
Retinoblastoma Protein-Binding Zinc Finger Protein1 2     RIZ12
Zinc-Finger DNA-Binding Protein1 2     RIZ22
Lysine N-Methyltransferase 82 3     PR Domain Zinc Finger Protein 22
Zinc Finger Protein RIZ2 3     EC 2.1.1.433

External Ids:    HGNC: 93471   Entrez Gene: 77992   Ensembl: ENSG000001167317   OMIM: 6011965   UniProtKB: Q130293   

Export aliases for PRDM2 gene to outside databases

Previous GC identifers: GC01P013428 GC01P013210 GC01P013394 GC01P013776 GC01P013899 GC01P012544


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for PRDM2 Gene:
This tumor suppressor gene is a member of a nuclear histone/protein methyltransferase superfamily. It encodes a
zinc finger protein that can bind to retinoblastoma protein, estrogen receptor, and the TPA-responsive element
(MTE) of the heme-oxygenase-1 gene. Although the functions of this protein have not been fully characterized, it
may (1) play a role in transcriptional regulation during neuronal differentiation and pathogenesis of
retinoblastoma, (2) act as a transcriptional activator of the heme-oxygenase-1 gene, and (3) be a specific
effector of estrogen action. Multiple transcript variants encoding different isoforms have been found for this
gene. (provided by RefSeq, Oct 2008)

GeneCards Summary for PRDM2 Gene:
PRDM2 (PR domain containing 2, with ZNF domain) is a protein-coding gene. Diseases associated with PRDM2 include retinoblastoma. GO annotations related to this gene include sequence-specific DNA binding transcription factor activity and histone-lysine N-methyltransferase activity.

UniProtKB/Swiss-Prot: PRDM2_HUMAN, Q13029
Function: S-adenosyl-L-methionine-dependent histone methyltransferase that specifically methylates 'Lys-9' of
histone H3. May function as a DNA-binding transcription factor. Binds to the macrophage-specific TPA-responsive
element (MTE) of the HMOX1 (heme oxygenase 1) gene and may act as a transcriptional activator of this gene

Gene Wiki entry for PRDM2 Gene


(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 at NCBI GenBank:
NC_000001.10  NT_032977.10  NC_018912.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the PRDM2 gene promoter:
         FOXJ2 (long isoform)   p300   FOXJ2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidPRDM2 promoter sequence
   Search Chromatin IP Primers for PRDM2

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat PRDM2


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

PRDM2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
PRDM2 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P014026:  view genomic region     (about GC identifiers)

Start:
14,026,693 bp from pter      End:
14,151,574 bp from pter
Size:
124,882 bases      Orientation:
plus 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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: PRDM2_HUMAN, Q13029 (See protein sequence)
Recommended Name: PR domain zinc finger protein 2  
Size: 1718 amino acids; 188915 Da
Subunit: Binds to the retinoblastoma protein (RB). Interacts with GATA3
Sequence caution: Sequence=BAA08110.1; Type=Erroneous initiation;
2 PDB 3D structures from and Proteopedia for PRDM2:
2JV0 (3D)        2QPW (3D)    
Secondary accessions: B1AJZ4 Q13149 Q14550 Q5VUL9
Alternative splicing, Alternative initiation: 4 isoforms:  Q13029-1   Q13029-2   Q13029-3   Q13029-4   (No experimental confirmation available. Ref.4 (BC014468) sequence is in conflict in position: 198:Q->R)

Explore the universe of human proteins at neXtProt for PRDM2: NX_Q13029

Explore proteomics data for PRDM2 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See PRDM2 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (4 alternative transcripts): 
    NP_001007258.1  NP_001129082.1  NP_036363.2  NP_056950.2  

    ENSEMBL proteins: 
     ENSP00000423010   ENSP00000365216   ENSP00000235372   ENSP00000424253   ENSP00000411103  
     ENSP00000341621   ENSP00000425028   ENSP00000384430   ENSP00000426737   ENSP00000474273  
     ENSP00000312352  

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    antibodies-online proteins for PRDM2 (4 products) 

     
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    antibodies-online antibodies for PRDM2 (52 products) 

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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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    HGNC Gene Families:
    KMT: Chromatin-modifying enzymes / K-methyltransferases

    5 InterPro protein domains:
     IPR001214 SET_dom
     IPR015880 Znf_C2H2-like
     IPR013087 Znf_C2H2/integrase_DNA-bd
     IPR009170 RIZ_retinblastoma-bd_prot
     IPR007087 Znf_C2H2

    Graphical View of Domain Structure for InterPro Entry Q13029

    ProtoNet protein and cluster: Q13029

    1 Blocks protein domain: IPB007086 C2H2-type zinc finger signature

    UniProtKB/Swiss-Prot: PRDM2_HUMAN, Q13029
    Similarity: Belongs to the class V-like SAM-binding methyltransferase superfamily
    Similarity: Contains 8 C2H2-type zinc fingers
    Similarity: Contains 1 SET domain


    Find genes that share domains with PRDM2           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: PRDM2_HUMAN, Q13029
    Function: S-adenosyl-L-methionine-dependent histone methyltransferase that specifically methylates 'Lys-9' of
    histone H3. May function as a DNA-binding transcription factor. Binds to the macrophage-specific TPA-responsive
    element (MTE) of the HMOX1 (heme oxygenase 1) gene and may act as a transcriptional activator of this gene
    Catalytic activity: S-adenosyl-L-methionine + L-lysine-[histone] = S-adenosyl-L-homocysteine +
    N(6)-methyl-L-lysine-[histone]

         Genatlas biochemistry entry for PRDM2:
    PR domain containing 2,retinoblastoma RB1 protein interacting zinc finger RIZ,with two alternative spliced
    forms,280kDa (RIZ1),250kDa (RIZ2),acting as a putative tumor suppressor,with RIZ1 commonly underexpressed in
    breast cancer and other carcinomas

         Enzyme Number (IUBMB): EC 2.1.1.431

         Gene Ontology (GO): Selected molecular function terms (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding IEA--
    GO:0003700sequence-specific DNA binding transcription factor activity NAS7590293
    GO:0005515protein binding ----
    GO:0008270zinc ion binding NAS7538672
    GO:0018024histone-lysine N-methyltransferase activity IEA--
         
    Find genes that share ontologies with PRDM2           About GenesLikeMe


    Phenotypes:
         2 MGI mutant phenotypes (inferred from 1 allele(MGI details for Prdm2):
     mortality/aging  tumorigenesis 

    Find genes that share phenotypes with PRDM2           About GenesLikeMe

    Animal Models:
         MGI mouse knock-out Prdm2tm1Shg for PRDM2

       genOway: Develop your customized and physiologically relevant rodent model for PRDM2

    miRNA
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    miRTarBase miRNAs that target PRDM2:
    hsa-mir-106b-3p (MIRT038603)

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    Selected qRT-PCR Assays for microRNAs that regulate PRDM2 (see all 35):
    hsa-miR-411* hsa-miR-520f hsa-miR-379* hsa-let-7d hsa-miR-106a hsa-miR-105 hsa-let-7g hsa-miR-93
    SwitchGear 3'UTR luciferase reporter plasmids (see all 2): PRDM2 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat PRDM2

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    Sino Biological Human cDNA Clone for PRDM2
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    Addgene plasmids for PRDM2 

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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PRDM2


    (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 UniProtKB/Swiss-Prot
    PRDM2_HUMAN, Q13029: Nucleus
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    golgi apparatus4
    cytosol2

    Gene Ontology (GO): 2 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus NAS7538672
    GO:0005794Golgi apparatus ----

    Find genes that share ontologies with PRDM2           About GenesLikeMe


    (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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        Pathway & Disease-focused RT2 Profiler PCR Arrays including PRDM2: 
              Lung Cancer in human mouse rat
              Epigenetic Chromatin Modification Enzymes in human mouse rat
              Breast Cancer in human mouse rat

    Interactions:

        GeneGlobe Interaction Network for PRDM2

    STRING Interaction Network Preview (showing 5 interactants - click image to see 8)

    Selected Interacting proteins for PRDM2 (Q130293 ENSP000002353724) via UniProtKB, MINT, STRING, and/or I2D (see all 10)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    E2F1Q010943, ENSP000003455714I2D: score=1 STRING: ENSP00000345571
    PGRP064013, ENSP000003251204I2D: score=1 STRING: ENSP00000325120
    TP53P046373, ENSP000002693054I2D: score=1 STRING: ENSP00000269305
    ESR1P033723, ENSP000002062494I2D: score=3 STRING: ENSP00000206249
    RB1P064003, ENSP000002671634I2D: score=3 STRING: ENSP00000267163
    About this table

    Gene Ontology (GO): 2 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006351transcription, DNA-templated IEA--
    GO:0006355regulation of transcription, DNA-templated NAS7590293

    Find genes that share ontologies with PRDM2           About GenesLikeMe



    (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 Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for PRDM2

    3 HMDB Compounds for PRDM2    About this table
    CompoundSynonyms CAS #PubMed Ids
    Heme(protoporphyrinato)iron (see all 19)14875-96-8--
    L-Lysine(+)-S-Lysine (see all 25)56-87-1--
    ZincZinc (see all 2)7440-66-6--

    Selected Novoseek inferred chemical compound relationships for PRDM2 gene (see all 14)    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    zinc 78.8 100 10405178 (3), 11135439 (2), 7969165 (2), 12002276 (2) (see all 68)
    5-aza-2'deoxycytidine 55.1 4 12631603 (2), 17052263 (1), 15069684 (1)
    vidarabine 43.1 2 15309726 (1), 10987271 (1)
    estrogen 26.5 16 10544042 (3), 19746436 (2), 18037365 (1), 11544182 (1) (see all 7)
    12-o-tetradecanoylphorbol 13-acetate 23.7 3 11591891 (2)
    estradiol 14.3 6 16356493 (3), 19746436 (1)
    lysine 12.5 1 8464881 (1)
    retinoic acid 11.3 4 11591891 (3)
    nad+ 8.08 1 7761396 (1)
    steroid 0 1 15579774 (1)



    Find genes that share compounds with PRDM2           About GenesLikeMe



    (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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for PRDM2 gene (4 alternative transcripts): 
    NM_001007257.2  NM_001135610.1  NM_012231.4  NM_015866.4  

    Unigene Cluster for PRDM2:

    PR domain containing 2, with ZNF domain
    Hs.371823  [show with all ESTs]
    Unigene Representative Sequence: NM_012231
    14 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000484063 ENST00000376048(uc001avg.3) ENST00000235372(uc001avi.3 uc009voe.3 uc009vof.3)
    ENST00000491134 ENST00000502727 ENST00000502724 ENST00000413440 ENST00000343137
    ENST00000491815 ENST00000503842 ENST00000407521 ENST00000505823 ENST00000487453
    ENST00000311066(uc021ogk.1 uc001avh.3 uc001avk.3)
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    hsa-miR-411* hsa-miR-520f hsa-miR-379* hsa-let-7d hsa-miR-106a hsa-miR-105 hsa-let-7g hsa-miR-93
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    Additional mRNA sequence: 

    AB208877.1 AK293725.1 AK300441.1 AK307377.1 AK308135.1 AK311678.1 BC014468.1 BC032768.1 
    BC140012.1 BX647310.1 D45132.1 U17838.1 U23736.1 

    14 DOTS entries:

    DT.448161  DT.86844161  DT.99984310  DT.100651847  DT.92459573  DT.100780195  DT.70105016  DT.121383012 
    DT.40272013  DT.91986350  DT.91757460  DT.121382923  DT.86846472  DT.91723557 

    Selected AceView cDNA sequences (see all 230):

    BQ012219 CR612351 AI095847 AA164823 BQ576099 BU621515 AI678060 BQ425878 
    AA858349 AK123605 BX113285 BG942814 BC014468 BQ012525 AA259044 BG035673 
    AI500424 BM693616 CA867905 NM_015866 AA961642 AU140221 CD722337 BX647310 

    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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    PRDM2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TGAAGAGAAT
    PRDM2 Expression
    About this image

    PRDM2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    PRDM2 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.371823

    UniProtKB/Swiss-Prot: PRDM2_HUMAN, Q13029
    Tissue specificity: Highly expressed in retinoblastoma cell lines and in brain tumors. Also expressed in a number
    of other cell lines and in brain, heart, skeletal muscle, liver and spleen. Isoform 1 is expressed in testis at
    much higher level than isoform 3

        Pathway & Disease-focused RT2 Profiler PCR Arrays including PRDM2: 
              Lung Cancer in human mouse rat
              Epigenetic Chromatin Modification Enzymes in human mouse rat
              Breast Cancer in human mouse rat

    Primer
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    OriGene qSTAR qPCR primer pairs in human, mouse for PRDM2
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat PRDM2
    QuantiTect SYBR Green Assays in human, mouse, rat PRDM2
    QuantiFast Probe-based Assays in human, mouse, rat PRDM2
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PRDM2

    (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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    This gene was present in the common ancestor of chordates.

    Orthologs for PRDM2 gene from Selected species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Prdm21 , 5 PR domain containing 2, with ZNF domain1, 5 83.26(n)1
    84.76(a)1
      4 (76.84 cM)5
    1105931  NM_001081355.31  NP_001074824.31 
     1431073915 
    chicken
    (Gallus gallus)
    Aves PRDM21 PR domain containing 2, with ZNF domain 73.14(n)
    73.42(a)
      419478  XM_003642514.2  XP_003642562.2 
    lizard
    (Anolis carolinensis)
    Reptilia PRDM26
    PR domain containing 2, with ZNF domain
    63(a)
    1 ↔ 1
    GL343969.1(180762-201594)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.196432 Xenopus laevis transcribed sequence with moderate similarity more 79.75(n)    BJ039540.1 
    zebrafish
    (Danio rerio)
    Actinopterygii prdm2b1 PR domain containing 2, with ZNF domain b 56.83(n)
    51.52(a)
      797296  XM_002663788.3  XP_002663834.2 


    ENSEMBL Gene Tree for PRDM2 (if available)
    TreeFam Gene Tree for PRDM2 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for PRDM2 gene
    6 SIMAP similar genes for PRDM2 using alignment to 7 protein entries:     PRDM2_HUMAN (see all proteins):
    EVI1    ZNF72    HZF16    DKFZp434J0650    DKFZp547H249    ZNF78L1

    Find genes that share paralogs with PRDM2           About GenesLikeMe



    (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 PRDM2 (see all 2588)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs115868111,2
    C,F,A,H--14024768(+) AAATGC/GTGATT 1 -- us2k111Minor allele frequency- G:0.22NA WA CSA EA 374
    rs1479394821,2
    --14024793(+) TTGATA/GGTGGA 1 -- us2k10--------
    rs1401018231,2
    --14024894(+) GGTGCA/GGAAGT 1 -- us2k10--------
    rs790967321,2
    C,F--14025007(+) AAACCC/TTTGAG 1 -- us2k12Minor allele frequency- T:0.03NA EA 240
    rs1455262851,2
    C--14025225(+) GCTCCA/GCCTCC 1 -- us2k10--------
    rs1841072661,2
    --14025389(+) CGCCTA/CGGCCT 1 -- us2k10--------
    rs1475899681,2
    --14025440(+) CCTAGC/GCTCAT 1 -- us2k10--------
    rs1887896641,2
    --14025466(+) TAACAC/TGATAT 1 -- us2k10--------
    rs1490490861,2
    C--14025572(+) CTCCGC/TCTCCT 1 -- us2k10--------
    rs1927512551,2
    --14025986(+) TATAAC/TGACAA 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for PRDM2 (14026693 - 14151574 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for PRDM2:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2744086CNV Deletion23290073
    nsv3187CNV Loss18451855
    nsv871035CNV Gain21882294
    nsv871863CNV Gain21882294

    Human Gene Mutation Database (HGMD): PRDM2
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing PRDM2
    DNA2.0 Custom Variant and Variant Library Synthesis for PRDM2

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 601196    OMIM disorders: --

    1 disease for PRDM2:    
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    retinoblastoma

    1 disease from the University of Copenhagen DISEASES database for PRDM2:
    Nephroblastoma

    Find genes that share disorders with PRDM2           About GenesLikeMe

    Selected Novoseek inferred disease relationships for PRDM2 gene (see all 23)    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    retinoblastoma 70.9 41 7538672 (2), 11135439 (2), 12002276 (2), 12472571 (2) (see all 18)
    microsatellite instability 63.6 9 10987271 (4), 15309726 (2), 11135439 (1), 14760116 (1) (see all 5)
    wilms tumor 58.6 8 7700638 (1), 9242555 (1), 9484784 (1), 1323141 (1) (see all 8)
    tumors 39.9 92 14668725 (5), 17103461 (5), 18712668 (4), 11544182 (4) (see all 36)
    allelic loss 33.5 3 14668725 (3)
    cancer 31.9 38 19746436 (4), 10369808 (3), 11719434 (3), 11135439 (3) (see all 17)
    oligodendroglioma 27.8 1 15711769 (1)
    hepatocellular carcinoma 27.6 9 18712668 (2), 11259086 (2), 17963297 (1), 19173828 (1) (see all 5)
    lymphoblastic leukemia acute childhood 25.3 1 15201966 (1)
    gastric cancer 21.2 10 15309726 (4), 14534544 (3), 11259086 (2), 9144414 (1)

    Genetic Association Database (GAD): PRDM2
    Human Genome Epidemiology (HuGE) Navigator: PRDM2 (11 documents)

    Export disorders for PRDM2 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 PRDM2 gene, integrated from 10 sources (see all 194):
    (articles sorted by number of sources associating them with PRDM2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The retinoblastoma protein binds to RIZ, a zinc-finger protein that shares an epitope with the adenovirus E1A protein. (PubMed id 7538672)1, 2, 3, 9 Buyse I.M.... Huang S. (Proc. Natl. Acad. Sci. U.S.A. 1995)
    2. cDNA cloning of a novel protein containing two zinc-finger domains that may function as a transcription factor for the human heme- oxygenase-1 gene. (PubMed id 8654390)1, 2, 9 Muraosa Y.... Shibahara S. (Eur. J. Biochem. 1996)
    3. Genetic polymorphisms in the Rb-binding zinc finger gene RIZ and the risk of lung cancer. (PubMed id 17693662)1, 4, 9 Yoon K.A....Lee J.S. (Carcinogenesis 2007)
    4. The RIZ Pro704 insertion-deletion polymorphism, bone mineral density and fracture risk: the Rotterdam study. (PubMed id 18037365)1, 4, 9 Stolk L....Uitterlinden A.G. (Bone 2008)
    5. Inactivation of a histone methyltransferase by mutations in human cancers. (PubMed id 14633678)1, 2, 9 Kim K.-C.... Huang S. (Cancer Res. 2003)
    6. Family-based analysis of genetic variation underlying psychosis-inducing effects of cannabis: sibling analysis and proband follow-up. (PubMed id 21041608)1, 4 van Winkel R. (Arch. Gen. Psychiatry 2011)
    7. Genotypes and haplotypes of the estrogen receptor genes, but not the retinoblastoma-interacting zinc finger protein 1 gene, are associated with osteoporosis. (PubMed id 20508921)1, 4 HarslA...Langdahl B.L. (Calcif. Tissue Int. 2010)
    8. Common genetic variation in candidate genes and susceptibility to subtypes of breast cancer. (PubMed id 19124506)1, 4 Mavaddat N....Pharoah P.D. (amp 2009)
    9. Genetic variants of methyl metabolizing enzymes and epigenetic regulators: associations with promoter CpG island hypermethylation in colorectal cancer. (PubMed id 19843671)1, 4 de Vogel S....van Engeland M. (amp 2009)
    10. Polymorphism in the IL18 gene and epithelial ovarian cancer in non-Hispanic white women. (PubMed id 19064572)1, 4 Palmieri R.T.... . (amp 2008)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    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: 7799 HGNC: 9347 AceView: PRDM2 Ensembl:ENSG00000116731 euGenes: HUgn7799
    ECgene: PRDM2 H-InvDB: PRDM2

    (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 PRDM2 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for PRDM2 Genetics and Cytogenetics in Oncology and Haematology

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for PRDM2 gene:
    Search GeneIP for patents involving PRDM2

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



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