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ZMYM5 Gene

protein-coding   GIFtS: 46
GCID: GC13M020397

Zinc Finger, MYM-Type 5

(Previous name: zinc finger protein 237)
(Previous symbol: ZNF237)
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(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
Zinc Finger, MYM-Type 51 2     ZNF198L12 3
Zinc Finger Protein 2371 2 3     HSPC0502
ZNF2371 2 3     MYM2
Zinc Finger Protein 198-Like 12 3     Zinc Finger MYM-Type Protein 52

External Ids:    HGNC: 130291   Entrez Gene: 92052   Ensembl: ENSG000001329507   UniProtKB: Q9UJ783   

Export aliases for ZMYM5 gene to outside databases

Previous GC identifers: GC13M019310 GC13M001202


(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 ZMYM5 Gene:
ZMYM5 (zinc finger, MYM-type 5) is a protein-coding gene. An important paralog of this gene is ZMYM4.


(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_000013.10  NT_024524.15  NC_018924.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the ZMYM5 gene promoter:
         STAT5B   Spz1   MAZR   POU3F1   RREB-1   p300   STAT5A   YY1   HEN1   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for ZMYM5

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ZMYM5


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

Entrez Gene cytogenetic band: 13q12   Ensembl cytogenetic band:  13q12.11   HGNC cytogenetic band: 13q12

ZMYM5 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZMYM5 gene location

GeneLoc information about chromosome 13         GeneLoc Exon Structure

GeneLoc location for GC13M020397:  view genomic region     (about GC identifiers)

Start:
20,397,622 bp from pter      End:
20,437,776 bp from pter
Size:
40,155 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, 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: ZMYM5_HUMAN, Q9UJ78 (See protein sequence)
Recommended Name: Zinc finger MYM-type protein 5  
Size: 669 amino acids; 74817 Da
Sequence caution: Sequence=AAF29022.1; Type=Frameshift; Positions=286, 322, 337;
1 PDB 3D structure from and Proteopedia for ZMYM5:
2DAS (3D)    
Secondary accessions: B2R6V1 Q5T6E1 Q5T6E2 Q5T6E4 Q96IY6 Q9NZY5 Q9UBW0 Q9UJ77
Alternative splicing: 5 isoforms:  Q9UJ78-4   Q9UJ78-1   Q9UJ78-2   Q9UJ78-3   Q9UJ78-5   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for ZMYM5: NX_Q9UJ78

Explore proteomics data for ZMYM5 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See ZMYM5 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (3 alternative transcripts): 
    NP_001034738.1  NP_001034739.1  NP_001136156.1  

    ENSEMBL proteins: 
     ENSP00000445779   ENSP00000372364   ENSP00000372361   ENSP00000337034  

    ZMYM5 Human Recombinant Protein Products:

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    Novus Biologicals ZMYM5 Protein
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    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
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    Cloud-Clone Corp. Proteins for ZMYM5

     
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    antibodies-online proteins for ZMYM5 (3 products) 

     
    antibodies-online peptides for ZMYM5

    ZMYM5 Antibody Products:

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    antibodies-online antibodies for ZMYM5 (6 products) 

    ZMYM5 Assay Products:

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    Cloud-Clone Corp. ELISAs for ZMYM5
    Cloud-Clone Corp. CLIAs for ZMYM5
    Search eBioscience for ELISAs for ZMYM5 
    antibodies-online kits for ZMYM5 (6 products) 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    ZMYM: Zinc fingers, MYM type

    3 InterPro protein domains:
     IPR011017 TRASH_dom
     IPR006580 Znf_TTF
     IPR010507 Znf_MYM

    Graphical View of Domain Structure for InterPro Entry Q9UJ78

    ProtoNet protein and cluster: Q9UJ78

    2 Blocks protein domains:
    IPB010507 MYM-type zinc finger
    IPB011017 TRASH


    UniProtKB/Swiss-Prot: ZMYM5_HUMAN, Q9UJ78
    Similarity: Contains 4 MYM-type zinc fingers


    Find genes that share domains with ZMYM5           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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         Gene Ontology (GO): 1 molecular function term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0008270zinc ion binding IEA--
         
    Find genes that share ontologies with ZMYM5           About GenesLikeMe


    Phenotypes:
         1 GenomeRNAi human phenotype for ZMYM5:
     Synthetic lethal with Ras 

    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for ZMYM5

    miRNA
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    8 qRT-PCR Assays for microRNAs that regulate ZMYM5:
    hsa-miR-548p hsa-miR-19b-2* hsa-miR-137 hsa-miR-7-2* hsa-miR-659 hsa-miR-19b-1* hsa-miR-7-1* hsa-miR-19a*
    Browse SwitchGear 3'UTR luciferase reporter plasmids
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZMYM5


    (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
    ZMYM5_HUMAN, Q9UJ78: Nucleus (Potential)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus3
    cytosol2

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IEA--

    Find genes that share ontologies with ZMYM5           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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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for ZMYM5
    Interactions:

        Search GeneGlobe Interaction Network for ZMYM5

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    Selected Interacting proteins for ZMYM5 (Q9UJ783 ENSP000003370344) via UniProtKB, MINT, STRING, and/or I2D (see all 6)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    GRB2P629933I2D: score=2 
    RPS6KA3P518123I2D: score=2 
    SKILP127573I2D: score=2 
    SNIP1Q8TAD83I2D: score=2 
    UBE2IP632793I2D: score=2 
    About this table

    (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 ZMYM5



    (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 ZMYM5 gene (4 alternative transcripts): 
    NM_014242.1  NM_001039649.2  NM_001039650.2  NM_001142684.1  

    Unigene Cluster for ZMYM5:

    Zinc finger, MYM-type 5
    Hs.530988  [show with all ESTs]
    Unigene Representative Sequence: NM_001142684
    8 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000382909 ENST00000535942 ENST00000502168 ENST00000382907 ENST00000382905(uc001umn.3)
    ENST00000467542 ENST00000495534(uc001umo.3) ENST00000337963(uc001umm.1 uc010tcn.1)

    miRNA
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    8 qRT-PCR Assays for microRNAs that regulate ZMYM5:
    hsa-miR-548p hsa-miR-19b-2* hsa-miR-137 hsa-miR-7-2* hsa-miR-659 hsa-miR-19b-1* hsa-miR-7-1* hsa-miR-19a*
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    Clone
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    OriGene ORF clones in mouse, rat for ZMYM5
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    Primer
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    OriGene qPCR primer pairs and template standards for ZMYM5
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      QuantiTect SYBR Green Assays in human, mouse, rat ZMYM5
      QuantiFast Probe-based Assays in human, mouse, rat ZMYM5

    Additional mRNA sequence: 

    AJ133352.1 AJ133353.1 AK312724.1 BC007048.1 BT006687.1 BX647750.1 

    11 DOTS entries:

    DT.40314791  DT.95368972  DT.92422818  DT.120795386  DT.421611  DT.95363028  DT.100751790  DT.120795402 
    DT.120795410  DT.91934401  DT.120795407 

    Selected AceView cDNA sequences (see all 59):

    AJ133354 BM696175 BM664454 BF058706 BM449459 BX093650 BG944134 AJ133352 
    AJ133355 AV705269 NM_014242 AI912659 AJ133353 CA314005 BC007048 AI522311 
    AF161535 BX501488 CK001106 BX281638 AA831734 AI922714 AF150178 AI918754 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for ZMYM5 (see all 7)    About this scheme

    ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5a · 5b · 5c ^ 6a · 6b ^ 7a · 7b ^ 8a · 8b · 8c ^ 9
    SP1:                                                                                      -         
    SP2:                                                              -     -                           
    SP3:                                                                                                
    SP4:                                                                    -                           
    SP5:              -                                                                                 


    ECgene alternative splicing isoforms for ZMYM5

    (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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    ZMYM5 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AAGCTGAAAG
    ZMYM5 Expression
    About this image

    ZMYM5 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    ZMYM5 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.530988
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    In Situ
    Assay Products:
     

     
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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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    This gene was present in the common ancestor of animals.

    Orthologs for ZMYM5 gene from Selected species (see all 10)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Zmym51 , 5 zinc finger, MYM-type 51, 5 79.86(n)1
    68.91(a)1
      14 (28.45 cM)5
    2191051  NM_144842.31  NP_659091.31 
     567929295 
    chicken
    (Gallus gallus)
    Aves --
    Uncharacterized protein
    18(a)
    1 → many
    1(178272655-178364924)
    lizard
    (Anolis carolinensis)
    Reptilia --
    Uncharacterized protein
    17(a)
    1 → many
    3(187129734-187237374)
    zebrafish
    (Danio rerio)
    Actinopterygii zmym26
    zinc finger, MYM-type 2
    11(a)
    1 → many
    9(22463648-22493509) ENSDARG00000027353
    fruit fly
    (Drosophila melanogaster)
    Insecta woc6
    without children
    4(a)
    1 → many
    3R(23082315-23089758)


    ENSEMBL Gene Tree for ZMYM5 (if available)
    TreeFam Gene Tree for ZMYM5 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for ZMYM5 gene
    ZMYM42  ENSG000002717412  ZMYM32  ZMYM62  ZMYM22  QRICH12  

    Find genes that share paralogs with ZMYM5           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 ZMYM5 (see all 924)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 13 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs347370971,2
    C--1375856(+) GCTAA-/TTTTTT 3 -- int10--------
    rs344680291,2
    C--1386635(+) AAAAAA/-GATGG 3 -- int11Minor allele frequency- -:0.00NA 2
    rs95797031,2
    C,F,A,H--20397124(+) CAAAAT/CGGTgg 1 -- ds500111Minor allele frequency- C:0.12NS EA NA WA 788
    rs1153510261,2
    --20397198(+) TGAGAA/CCAGGA 1 -- ds50010--------
    rs95797041,2
    C,F,A,H--20397217(+) TCAGCC/TTGGAC 1 -- ds50019Minor allele frequency- T:0.40NA WA EA 372
    rs1382508651,2
    C--20397248(+) ATTTA-/AAAC  
            
    AAACA
    1 -- ds50010--------
    rs1174085001,2
    F--20397273(+) CACTCA/TAAATG 1 -- ds50011Minor allele frequency- T:0.01EA 120
    rs1851128811,2
    --20397283(+) GGTTAA/GAAGTT 1 -- ds50010--------
    rs1899711621,2
    --20397306(+) TTTCAC/TGGGTA 1 -- ds50010--------
    rs1830896751,2
    C--20397340(+) TCATTC/GAGAGT 1 -- ds50010--------

    HapMap Linkage Disequilibrium report for ZMYM5 (20397622 - 20437776 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 7 variations for ZMYM5:    About this table    
    Variant IDTypeSubtypePubMed ID
    dgv1553n71CNV Loss21882294
    nsv455826CNV Loss19166990
    dgv1551n71CNV Loss21882294
    nsv899860CNV Loss21882294
    nsv899865CNV Gain21882294
    nsv899857CNV Gain21882294
    nsv516945CNV Gain+Loss19592680

    Human Gene Mutation Database (HGMD): ZMYM5
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing ZMYM5
    DNA2.0 Custom Variant and Variant Library Synthesis for ZMYM5

    (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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    Find genes that share disorders with ZMYM5           About GenesLikeMe


    Export disorders for ZMYM5 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 ZMYM5 gene, integrated from 10 sources (see all 14):
    (articles sorted by number of sources associating them with ZMYM5)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Cloning of ZNF237, a novel member of the MYM gene family that maps to human chromosome 13q11-->q12. (PubMed id 10894931)1, 2, 9 Sohal J.... Cross N.C. (Cytogenet. Cell Genet. 2000)
    2. The DNA sequence and analysis of human chromosome 13. (PubMed id 15057823)1, 2 Dunham A.... Ross M.T. (Nature 2004)
    3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    4. Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells. (PubMed id 11042152)1, 2 Zhang Q.-H.... Chen Z. (Genome Res. 2000)
    5. A Y2H-seq approach defines the human protein methyltransferase interactome. (PubMed id 23455924)1 Weimann M.... Stelzl U. (Nat. Methods 2013)
    6. Pathway Analysis of ChIP-Seq-Based NRF1 Target Genes Suggests a Logical Hypothesis of their Involvement in the Pathogenesis of Neurodegenerative Diseases. (PubMed id 24250222)1 Satoh J....Yamamoto Y. (Gene Regul Syst Bio 2013)
    7. Interactions of pathological hallmark proteins: tubulin polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (J. Biol. Chem. 2011)
    8. Transcriptional regulation of the presenilin-1 gene controls gamma-secretase activity. (PubMed id 20036849)1 Lee S. and Das H.K. (Front Biosci (Elite Ed) 2010)
    9. Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions. (PubMed id 19690332)2 Mayya V.... Han D.K. (Sci. Signal. 2009)
    10. Analysis of transcriptional modulation of the presenilin 1 gene promoter by ZNF237, a candidate binding partner of the Ets transcription factor ERM. (PubMed id 17126306)1 Pastorcic M. and Das H.K. (Brain Res. 2007)

    (in PubMed, OMIM, and NCBI Bookshelf)
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      Query String
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 9205 HGNC: 13029 AceView: ZNF237 Ensembl:ENSG00000132950 euGenes: HUgn9205
    ECgene: ZMYM5 H-InvDB: ZMYM5

    (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 ZMYM5 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 ZMYM5 gene:
    Search GeneIP for patents involving ZMYM5

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



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