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ZMYM1 Gene

protein-coding   GIFtS: 48
GCID: GC01P035526

Zinc Finger, MYM-Type 1

(Previous names: zinc finger, MYM domain containing 1)
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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 11 2
Zinc Finger, MYM Domain Containing 11 2
MYM2
Zinc Finger MYM-Type Protein 12

External Ids:    HGNC: 262531   Entrez Gene: 798302   Ensembl: ENSG000001970567   UniProtKB: Q5SVZ63   

Export aliases for ZMYM1 gene to outside databases

Previous GC identifers: GC01P034972 GC01P035214 GC01P035317 GC01P033662


(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 ZMYM1 Gene:
ZMYM1 (zinc finger, MYM-type 1) is a protein-coding gene. GO annotations related to this gene include protein dimerization activity and nucleic acid binding.


(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 ZMYM1 gene promoter:
         CREB   AREB6   MZF-1   Sp1   deltaCREB   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZMYM1 promoter sequence
   Search Chromatin IP Primers for ZMYM1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ZMYM1


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

Entrez Gene cytogenetic band: 1p34.3   Ensembl cytogenetic band:  1p34.3   HGNC cytogenetic band: 1p34.3

ZMYM1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZMYM1 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P035526:  view genomic region     (about GC identifiers)

Start:
35,525,387 bp from pter      End:
35,581,460 bp from pter
Size:
56,074 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, LSBio, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: ZMYM1_HUMAN, Q5SVZ6 (See protein sequence)
Recommended Name: Zinc finger MYM-type protein 1  
Size: 1142 amino acids; 128717 Da
Secondary accessions: D3DPR7 Q7Z3Q4

Explore the universe of human proteins at neXtProt for ZMYM1: NX_Q5SVZ6

Explore proteomics data for ZMYM1 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys106
  • Modification sites at PhosphoSitePlus

  • See ZMYM1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (5 alternative transcripts): 
    NP_001276017.1  NP_001276018.1  NP_001276019.1  NP_001276020.1  NP_079048.3  

    ENSEMBL proteins: 
     ENSP00000394233   ENSP00000352920   ENSP00000362427  

    ZMYM1 Human Recombinant Protein Products:

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    antibodies-online peptides for ZMYM1

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    antibodies-online antibodies for ZMYM1 (8 products) 

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    Cloud-Clone Corp. ELISAs for ZMYM1
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    antibodies-online kits for ZMYM1 (2 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

    Selected InterPro protein domains (see all 6):
     IPR025398 DUF4371
     IPR011017 TRASH_dom
     IPR006580 Znf_TTF
     IPR008906 HATC_dom_C
     IPR010507 Znf_MYM

    Graphical View of Domain Structure for InterPro Entry Q5SVZ6

    ProtoNet protein and cluster: Q5SVZ6

    2 Blocks protein domains:
    IPB008906 HAT dimerisation
    IPB011017 TRASH


    UniProtKB/Swiss-Prot: ZMYM1_HUMAN, Q5SVZ6
    Similarity: Contains 4 MYM-type zinc fingers
    Similarity: Contains 1 TTF-type zinc finger


    Find genes that share domains with ZMYM1           About GenesLikeMe


    (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, 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): 3 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding IEA--
    GO:0008270zinc ion binding IEA--
    GO:0046983protein dimerization activity IEA--
         
    Find genes that share ontologies with ZMYM1           About GenesLikeMe


    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for ZMYM1
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    miRNA
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    miRTarBase miRNAs that target ZMYM1:
    hsa-mir-192-5p (MIRT026522)

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    6 qRT-PCR Assays for microRNAs that regulate ZMYM1:
    hsa-miR-3671 hsa-miR-548p hsa-miR-374b hsa-miR-374a hsa-miR-616* hsa-miR-373*
    SwitchGear 3'UTR luciferase reporter plasmidZMYM1 3' UTR sequence
    Inhib. RNA
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    GenScript: all cDNA clones in your preferred vector: ZMYM1 (NM_024772)
    Browse Sino Biological Human cDNA Clones
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat ZMYM1

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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZMYM1


    (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
    ZMYM1_HUMAN, Q5SVZ6: 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 ZMYM1           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 ZMYM1
    Interactions:

        Search GeneGlobe Interaction Network for ZMYM1

    STRING Interaction Network Preview (showing 4 interactants - click image to see more details)

    4 Interacting proteins for ZMYM1 (ENSP000003529204) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    MFSD2AENSP000003618954STRING: ENSP00000361895
    TMEM59ENSP000002348314STRING: ENSP00000234831
    SUMO2ENSP000004059654STRING: ENSP00000405965
    UBCENSP000003448184STRING: ENSP00000344818
    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 ZMYM1



    (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 ZMYM1 gene (5 alternative transcripts): 
    NM_001289088.1  NM_001289089.1  NM_001289090.1  NM_001289091.1  NM_024772.4  

    Unigene Cluster for ZMYM1:

    Zinc finger, MYM-type 1
    Hs.471243  [show with all ESTs]
    Unigene Representative Sequence: CR936813
    9 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000417119 ENST00000359858(uc001byl.1 uc001bym.3 uc010ohu.2 uc009vut.3)
    ENST00000466390 ENST00000488455(uc009vus.1) ENST00000475654 ENST00000373329
    ENST00000373330(uc001byn.3 uc001byo.3) ENST00000476269 ENST00000463393

    miRNA
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    6 qRT-PCR Assays for microRNAs that regulate ZMYM1:
    hsa-miR-3671 hsa-miR-548p hsa-miR-374b hsa-miR-374a hsa-miR-616* hsa-miR-373*
    SwitchGear 3'UTR luciferase reporter plasmidZMYM1 3' UTR sequence
    Inhib. RNA
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    OriGene RNAi products in human, mouse, rat for ZMYM1
    Predesigned siRNA for gene silencing in human, mouse, rat ZMYM1
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    OriGene ORF clones in mouse, rat for ZMYM1
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: ZMYM1 (NM_024772)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for ZMYM1
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat ZMYM1
    Primer
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    OriGene qPCR primer pairs and template standards for ZMYM1
    OriGene qSTAR qPCR primer pairs in human, mouse for ZMYM1
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat ZMYM1
      QuantiTect SYBR Green Assays in human, mouse, rat ZMYM1
      QuantiFast Probe-based Assays in human, mouse, rat ZMYM1

    Additional mRNA sequence: 

    AK026804.1 AK096206.1 AK125741.1 AK299779.1 AK308655.1 BC037313.1 BX537537.1 BX648307.1 
    CR936813.1 

    9 DOTS entries:

    DT.443319  DT.121356682  DT.100024634  DT.101980075  DT.101970072  DT.121356657  DT.121356683  DT.405279 
    DT.100725907 

    Selected AceView cDNA sequences (see all 69):

    CB131944 BM552225 AA453867 BP338027 CB132609 AK096206 AK125741 CA455078 
    BC037313 CA390349 CD683862 NM_024772 BU852345 BU853753 BX473043 AA905104 
    CK130281 BU854244 BG209884 BU854440 BU568340 AW276555 AW590498 BU567393 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for ZMYM1 (see all 6)    About this scheme

    ExUns: 1 ^ 2 ^ 3a · 3b ^ 4a · 4b ^ 5 ^ 6a · 6b ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12a · 12b
    SP1:                                                  -     -                                             
    SP2:              -                                   -     -                                             
    SP3:        -     -     -                             -     -                                             
    SP4:              -     -                             -     -                                             
    SP5:              -     -           -                                                                     


    ECgene alternative splicing isoforms for ZMYM1

    (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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    ZMYM1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AGAGTGCCTA
    ZMYM1 Expression
    About this image

    ZMYM1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    ZMYM1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.471243
        Custom PCR Arrays for ZMYM1
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZMYM1

    (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 eukaryotes.

    Orthologs for ZMYM1 gene from Selected species (see all 10)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Zmym11 , 5 zinc finger, MYM domain containing 11, 5 73.19(n)1
    63.2(a)1
      4 (61.22 cM)5
    683101  NM_026670.41  NP_080946.31 
     1270470945 
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    (see all 10)
    Uncharacterized protein
    (see all 10)
    24(a)
    23(a)
    (see all 10)
    many → 1
    many → 1
    (see all 10)
    3(111487337-111489415)
    GL343673.1(9211-11346)
    zebrafish
    (Danio rerio)
    Actinopterygii LOC1018866311 zinc finger MYM-type protein 1-like 45.13(n)
    29.84(a)
      101886631  XM_005167520.1  XP_005167577.1 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT2G065411 AT2G06541 46.31(n)
    31.14(a)
      6240332  NM_001161028.1  NP_001154500.1 
    rice
    (Oryza sativa)
    Liliopsida Os01g02936001 Os01g0293600 44.71(n)
    29.21(a)
      4326714  NM_001049333.2  NP_001042798.2 


    ENSEMBL Gene Tree for ZMYM1 (if available)
    TreeFam Gene Tree for ZMYM1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for ZMYM1 gene
    2 SIMAP similar genes for ZMYM1 using alignment to 3 protein entries:     ZMYM1_HUMAN (see all proteins):
    ZMYM4    ZMYM6

    Find genes that share paralogs with ZMYM1           About GenesLikeMe


    3 Pseudogenes.org Pseudogenes for ZMYM1
    PGOHUM00000247658 PGOHUM00000240093 PGOHUM00000242054


    (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 ZMYM1 (see all 859)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1999284881,2
    C--35556688(-) ATTCCC/TTNNNN 1 -- int10--------
    rs1876173751,2
    --35624729(+) CTTTAC/TAAGAT 1 -- us2k10--------
    rs729050611,2
    C,F--35625147(+) TTCCCC/TGTCTT 1 -- us2k12Minor allele frequency- T:0.03WA 120
    rs743717601,2
    F--35625417(+) TATGAA/CTATTA 1 -- us2k11Minor allele frequency- C:0.02WA 118
    rs1928163121,2
    --35625438(+) ATAAAC/TGTTGG 1 -- us2k10--------
    rs1463441611,2
    --35625637(+) TCAAAC/TATGAT 1 -- us2k10--------
    rs2010616921,2
    --35625752(+) ATTGT-/CCAAAA 1 -- us2k10--------
    rs1420356661,2
    C--35625753(+) TTGTC-/AAAAAA 1 -- us2k10--------
    rs1165307011,2
    C,F--35625770(+) AAAATA/CTGCCA 1 -- us2k11Minor allele frequency- C:0.04WA 118
    rs1840620371,2
    --35625845(+) GACGCA/CGTCTC 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for ZMYM1 (35525387 - 35581460 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for ZMYM1:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv422CNV Insertion18451855
    nsv870757CNV Gain21882294

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing ZMYM1
    DNA2.0 Custom Variant and Variant Library Synthesis for ZMYM1

    (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 ZMYM1           About GenesLikeMe

    Genetic Association Database (GAD): ZMYM1

    Export disorders for ZMYM1 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 ZMYM1 gene, integrated from 10 sources (see all 13):
    (articles sorted by number of sources associating them with ZMYM1)
        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, 3 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    3. 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)
    4. Systematic and quantitative assessment of the ubiquitin-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (Mol. Cell 2011)
    5. Mass spectrometric analysis of lysine ubiquitylation reveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (amp 2011)
    6. Comparative proteomic analysis identifies a role for SUMO in protein quality control. (PubMed id 21693764)1 Tatham M.H....Hay R.T. (Sci Signal 2011)
    7. Global identification of modular cullin-RING ligase substrates. (PubMed id 21963094)1 Emanuele M.J....Elledge S.J. (Cell 2011)
    8. Systematic analysis of human protein complexes identifies chromosome segregation proteins. (PubMed id 20360068)1 Hutchins J.R.... Peters J.M. (Science 2010)
    9. System-wide changes to SUMO modifications in response to heat shock. (PubMed id 19471022)1 Golebiowski F....Hay R.T. (Sci Signal 2009)
    10. Genome-wide association with diabetes-related traits in the Framingham Heart Study. (PubMed id 17903298)4 Meigs J.B....Dupuis J. (BMC Med. Genet. 2007)

    (in PubMed, OMIM, and NCBI Bookshelf)
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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: 79830 HGNC: 26253 AceView: ZMYM1 Ensembl:ENSG00000197056 euGenes: HUgn79830
    ECgene: ZMYM1 H-InvDB: ZMYM1

    (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 ZMYM1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
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    IP news from LifeMap Sciences, Inc.)
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    Patent Information for ZMYM1 gene:
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    GeneCards and IP:
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