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ZMYND15 Gene

protein-coding   GIFtS: 41
GCID: GC17P004644

Zinc Finger, MYND-Type Containing 15

  Search for ZMYND15
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
Zinc Finger, MYND-Type Containing 151 2
Zinc Finger MYND Domain-Containing Protein 152
Zinc Finger, MYND Domain Containing 152

External Ids:    HGNC: 209971   Entrez Gene: 842252   Ensembl: ENSG000001414977   OMIM: 6143125   UniProtKB: Q9H0913   

Export aliases for ZMYND15 gene to outside databases

Previous GC identifers: GC17P004594 GC17P004850 GC17P004849 GC17P004590 GC17P004531


(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 ZMYND15 Gene:
This gene encodes a MYND-containing zinc-binding protein with a nuclear localization sequence. A similar gene in
mice has been shown to act as a testis-specific transcriptional repressor by recruiting histone deacetylase
enzymes to regulate spatiotemporal expression of many haploid genes. This protein may play an important role in
spermatogenesis. Alternative splicing results in multiple transcript variants and protein isoforms. (provided by
RefSeq, Jun 2012)

GeneCards Summary for ZMYND15 Gene:
ZMYND15 (zinc finger, MYND-type containing 15) is a protein-coding gene. GO annotations related to this gene include histone deacetylase binding.

UniProtKB/Swiss-Prot: ZMY15_HUMAN, Q9H091
Function: Acts as a transcriptional repressor through interaction with histone deacetylases (HDACs). May regulate
haploid genes important for spermiogenesis (By similarity)




(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_000017.11  NC_018928.2  NT_010718.17  
Regulatory elements:
   Regulatory transcription factor binding sites in the ZMYND15 gene promoter:
         PPAR-gamma1   STAT3   PPAR-gamma2   NF-kappaB1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZMYND15 promoter sequence
   Search Chromatin IP Primers for ZMYND15

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ZMYND15


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

Entrez Gene cytogenetic band: 17p13.2   Ensembl cytogenetic band:  17p13.2   HGNC cytogenetic band: 17p13.3

ZMYND15 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZMYND15 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17P004644:  view genomic region     (about GC identifiers)

Start:
4,643,319 bp from pter      End:
4,649,411 bp from pter
Size:
6,093 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, 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, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: ZMY15_HUMAN, Q9H091 (See protein sequence)
Recommended Name: Zinc finger MYND domain-containing protein 15  
Size: 742 amino acids; 81860 Da
Subunit: Interacts with HDAC1, HDAC3, HDAC6 and, to a lesser extent, with HDAC7 (By similarity)
Secondary accessions: B4DXY5 I3L296
Alternative splicing: 3 isoforms:  Q9H091-1   Q9H091-2   Q9H091-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for ZMYND15: NX_Q9H091

Explore proteomics data for ZMYND15 at MOPED


See ZMYND15 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins (3 alternative transcripts): 
NP_001129518.1  NP_001254751.1  NP_115641.1  

ENSEMBL proteins: 
 ENSP00000391742   ENSP00000465435   ENSP00000459501   ENSP00000269289  

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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:
ZMYND: Zinc fingers, MYND-type

1 InterPro protein domain:
 IPR002893 Znf_MYND

Graphical View of Domain Structure for InterPro Entry Q9H091

ProtoNet protein and cluster: Q9H091

1 Blocks protein domain: IPB002893 Zn-finger

UniProtKB/Swiss-Prot: ZMY15_HUMAN, Q9H091
Similarity: Contains 1 MYND-type zinc finger


ZMYND15 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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Molecular Function:

     UniProtKB/Swiss-Prot Summary: ZMY15_HUMAN, Q9H091
Function: Acts as a transcriptional repressor through interaction with histone deacetylases (HDACs). May regulate
haploid genes important for spermiogenesis (By similarity)

     Gene Ontology (GO): 2 molecular function terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0042826histone deacetylase binding IEA--
GO:0046872metal ion binding IEA--
     
ZMYND15 for ontologies           About GeneDecksing


Phenotypes:
     1 GenomeRNAi human phenotype for ZMYND15:
 Decreased homologous recombina 

     6 MGI mutant phenotypes (inferred from 1 allele(MGI details for Zmynd15):
 cardiovascular system  cellular  endocrine/exocrine gland  hematopoietic system  immune system 
 reproductive system 

ZMYND15 for phenotypes           About GeneDecksing

Animal Models:
     MGI mouse knock-out Cxcl16/Zmynd15Cxcl16/tm1Ifc for ZMYND15

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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 UniProtKB/Swiss-Prot
ZMY15_HUMAN, Q9H091: Nucleus (By similarity). Cytoplasm (By similarity)
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
nucleus3
cytosol1
endoplasmic reticulum1
golgi apparatus1
mitochondrion1
peroxisome1
plasma membrane1

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

GO IDQualified GO termEvidencePubMed IDs
GO:0005634nucleus IEA--
GO:0005737cytoplasm IEA--

ZMYND15 for ontologies           About GeneDecksing


(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 ZMYND15
Interactions:

    Search GeneGlobe Interaction Network for ZMYND15

STRING Interaction Network Preview (showing 5 interactants - click image to see 6)

Selected Interacting proteins for ZMYND15 (ENSP000003917424) via UniProtKB, MINT, STRING, and/or I2D (see all 6)
InteractantInteraction Details
GeneCardExternal ID(s)
COMMD3ENSP000003660324STRING: ENSP00000366032
ENSG00000206324ENSP000003827234STRING: ENSP00000382723
ENSG00000206329ENSP000003727894STRING: ENSP00000372789
ENSG00000206435ENSP000003729754STRING: ENSP00000372975
ENSG00000230143ENSP000003888614STRING: ENSP00000388861
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Gene Ontology (GO): 3 biological process terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0006351transcription, DNA-templated IEA--
GO:0007286spermatid development IEA--
GO:0045892negative regulation of transcription, DNA-templated IEA--

ZMYND15 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 Small Molecules at EMD Millipore
   Browse drugs & compounds from Enzo Life Sciences
  Browse compounds at ApexBio 

Browse Tocris compounds for ZMYND15 (ZMY15)



(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,
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 ZMYND15 gene (3 alternative transcripts): 
NM_001136046.2  NM_001267822.1  NM_032265.2  

Unigene Cluster for ZMYND15:

Zinc finger, MYND-type containing 15
Hs.47223  [show with all ESTs]
Unigene Representative Sequence: NM_001267822
6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000433935(uc002fyv.2 uc002fyt.2) ENST00000574829 ENST00000592813
ENST00000573751(uc002fyu.2) ENST00000571782 ENST00000269289
miRNA
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Primer
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  QuantiFast Probe-based Assays in human, mouse, rat ZMYND15

Additional mRNA sequence: 

AK302181.1 AL136893.1 BC067296.1 BC090874.1 BC136407.1 

4 DOTS entries:

DT.120991873  DT.75120541  DT.100673645  DT.448143 

Selected AceView cDNA sequences (see all 42):

AI217394 AL136893 BX110841 BC067296 NM_032265 BE139547 CA311658 CB306761 
CK904017 BM053139 AL041800 CA455035 BM977693 BX358284 AW072453 BM982473 
CA310234 CA312523 BM839326 AI809982 BM997985 AW135938 AI798209 BQ004455 

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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ZMYND15 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: AAAAGGTAAA
ZMYND15 Expression
About this image

ZMYND15 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

ZMYND15 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.47223
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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 eukaryotes.

Orthologs for ZMYND15 gene from Selected species (see all 10)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Zmynd151 , 5 zinc finger, MYND-type containing 151, 5 83.9(n)1
84.49(a)1
  11 (42.99 cM)5
5744281  NM_001029929.21  NP_001025100.11 
 704594335 
lizard
(Anolis carolinensis)
Reptilia ZMYND156
zinc finger, MYND-type containing 15
44(a)
1 ↔ 1
GL344832.1(1954-19497)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT1G701501 AT1G70150 39.29(n)
30.26(a)
  843351  NM_105683.6  NP_177172.6 
rice
(Oryza sativa)
Liliopsida Os07g04810001 Os07g0481000 40.16(n)
32.05(a)
  4343232  NM_001066175.1  NP_001059640.1 


ENSEMBL Gene Tree for ZMYND15 (if available)
TreeFam Gene Tree for ZMYND15 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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(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 ZMYND15 (see all 176)    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 17 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1492427951,2
C,F--4645252(+) TTAGCC/TAAAAC 6 A syn12Minor allele frequency- T:0.00NA EU 5875
rs1832030261,2
C--4645280(+) GTCCCC/TGGCCA 6 R W mis10--------
rs1438378901,2
C,F--4645281(+) TCCCCG/AGCCAG 6 /Q /R mis11Minor allele frequency- A:0.00NA 4548
rs2004164111,2
C--4645308(+) CCTTCA/GTGCTC 6 H R mis10--------
rs1997268701,2
--4645323(+) CTGCCA/GTGTGT 6 H R mis10--------
rs38265171,2
C,F,A,H--4645324(-) CACACA/GTGGCA 6 H syn1 ese322Minor allele frequency- G:0.31NS EA NA CSA WA EU 8206
rs1461125571,2
C--4645333(+) TGTCAC/AAGGCA 6 /Q /H mis11Minor allele frequency- A:0.00NA 4532
rs2011099231,2
--4645351(+) GAAGCA/GAAGCT 6 A syn10--------
rs771534301,2
C--4645387(+) CTGGGG/TGAGAG 3 -- int10--------
rs2004794641,2
C--4645402(+) ACCCCA/GATAGG 3 -- int11Minor allele frequency- G:0.00EU 1215

HapMap Linkage Disequilibrium report for ZMYND15 (4643319 - 4649411 bp)

Structural Variations
     Database of Genomic Variants (DGV) 2 variations for ZMYND15:    About this table    
Variant IDTypeSubtypePubMed ID
nsv1952CNV Insertion18451855
nsv833346CNV Loss17160897

Site Specific Mutation Identification with PCR Assays
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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.)
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OMIM gene information: 614312    OMIM disorders: --


ZMYND15 for disorders           About GeneDecksing


Export disorders for ZMYND15 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 ZMYND15 gene integrated from 10 sources:
(articles sorted by number of sources associating them with ZMYND15)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PubMed id 11230166)1, 2, 3 Wiemann S.... Poustka A. (Genome Res. 2001)
  2. Zmynd15 encodes a histone deacetylase-dependent transcriptional repressor essential for spermiogenesis and male fertility. (PubMed id 20675388)1 Yan W....Charo I.F. (J. Biol. Chem. 2010)
  3. DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage. (PubMed id 16625196)2 Zody M.C.... Nusbaum C. (Nature 2006)
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (Nat. Genet. 2004)
  6. 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: 84225 HGNC: 20997 AceView: ZMYND15 Ensembl:ENSG00000141497 euGenes: HUgn84225
ECgene: ZMYND15 H-InvDB: ZMYND15

(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 ZMYND15 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 ZMYND15 gene:
Search GeneIP for patents involving ZMYND15

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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GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014

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