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Aliases for ZMYM3 Gene

Aliases for ZMYM3 Gene

  • Zinc Finger MYM-Type Containing 3 2 3 5
  • Zinc Finger Protein 261 2 3 4
  • DXS6673E 3 4
  • ZNF261 3 4
  • Zinc Finger MYM-Type Protein 3 3
  • Zinc Finger, MYM-Type 3 3
  • ZNF198L2 3
  • KIAA0385 4
  • XFIM 3
  • MYM 3

External Ids for ZMYM3 Gene

Previous HGNC Symbols for ZMYM3 Gene

  • ZNF261

Previous GeneCards Identifiers for ZMYM3 Gene

  • GC0XM070243
  • GC0XM070376
  • GC0XM070459
  • GC0XM064255

Summaries for ZMYM3 Gene

Entrez Gene Summary for ZMYM3 Gene

  • This gene is located on the X chromosome and is subject to X inactivation. It is highly conserved in vertebrates and most abundantly expressed in the brain. The encoded protein is a component of histone deacetylase-containing multiprotein complexes that function through modifying chromatin structure to keep genes silent. A chromosomal translocation (X;13) involving this gene is associated with X-linked cognitive disability. Several alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Jan 2010]

GeneCards Summary for ZMYM3 Gene

ZMYM3 (Zinc Finger MYM-Type Containing 3) is a Protein Coding gene. Diseases associated with ZMYM3 include Dystonia-Parkinsonism, X-Linked and Myasthenic Syndrome, Congenital, 6, Presynaptic. An important paralog of this gene is ZMYM4.

UniProtKB/Swiss-Prot for ZMYM3 Gene

  • Plays a role in the regulation of cell morphology and cytoskeletal organization.

Gene Wiki entry for ZMYM3 Gene

Additional gene information for ZMYM3 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ZMYM3 Gene

Genomics for ZMYM3 Gene

Regulatory Elements for ZMYM3 Gene

Enhancers for ZMYM3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH0XH072107 1.7 FANTOM5 Ensembl ENCODE dbSUPER 16.2 -852.7 -852734 1 KLF17 RAD21 GLIS2 ATF7 EGR2 CEBPB ZEB2 ZNF398 ZNF781 ZFP69B RTL5 FLJ44635 ZMYM3 NHSL2 HDAC8 OGT PIR32507 PIR46676
GH0XH071181 2 FANTOM5 Ensembl ENCODE dbSUPER 12.3 +72.4 72390 3 PKNOX1 FOXA2 ARNT ZFP64 ARID4B SIN3A FEZF1 DMAP1 YY1 ZNF766 TAF1 NONO OGT MED12 LOC100420758 ENSG00000229601 ARR3 P2RY4 RTL5 RPS23P8
GH0XH072094 1.5 FANTOM5 Ensembl ENCODE dbSUPER 16.2 -840.0 -840019 1 PKNOX1 MXI1 RFX1 SOX6 TAL1 MAX ELF1 BMI1 ZNF585B MYNN ZMYM3 RTL5 HDAC8 CXCR3 PIR32507 PIR42075
GH0XH071224 0.9 ENCODE dbSUPER 20.5 +29.7 29722 2 GATAD2A SAP130 FOXA3 RARA HNF1A CEBPA NR2F6 SMAD4 BCL6 RXRB ZMYM3 GJB1 NONO GC0XP071223 GC0XM071249 PIR53282
GH0XH071145 1.2 ENCODE dbSUPER 13.5 +108.9 108852 1 HDGF ATF1 FOXA2 ARNT ZNF493 TCF12 GLIS2 KLF7 ATF7 SP3 MED12 LOC392489 TAF1 NONO ZMYM3 LOC100420758 ARR3 P2RY4 OGT RPS23P8
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around ZMYM3 on UCSC Golden Path with GeneCards custom track

Promoters for ZMYM3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000247121 961 2601 HDGF PKNOX1 ARNT SIN3A FEZF1 GLI4 ZNF2 BRCA1 YY1 ZNF766

Genomic Location for ZMYM3 Gene

Chromosome:
X
Start:
71,239,624 bp from pter
End:
71,255,261 bp from pter
Size:
15,638 bases
Orientation:
Minus strand

Genomic View for ZMYM3 Gene

Genes around ZMYM3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZMYM3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZMYM3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZMYM3 Gene

Proteins for ZMYM3 Gene

  • Protein details for ZMYM3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q14202-ZMYM3_HUMAN
    Recommended name:
    Zinc finger MYM-type protein 3
    Protein Accession:
    Q14202
    Secondary Accessions:
    • D3DVV3
    • O15089
    • Q96E26

    Protein attributes for ZMYM3 Gene

    Size:
    1370 amino acids
    Molecular mass:
    152379 Da
    Quaternary structure:
    • May be a component of a BHC histone deacetylase complex that contains HDAC1, HDAC2, HMG20B/BRAF35, KDM1A, RCOR1/CoREST, PHF21A/BHC80, ZMYM2, ZNF217, ZMYM3, GSE1 and GTF2I.
    SequenceCaution:
    • Sequence=BAA20839.2; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for ZMYM3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for ZMYM3 Gene

Post-translational modifications for ZMYM3 Gene

  • Ubiquitination at Lys577, Lys1072, Lys1078, isoforms=21086, isoforms=21100, isoforms=21251, isoforms=21298, and isoforms=21306
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for ZMYM3 Gene

Domains & Families for ZMYM3 Gene

Gene Families for ZMYM3 Gene

HGNC:
Human Protein Atlas (HPA):
  • Disease related genes
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for ZMYM3 Gene

Suggested Antigen Peptide Sequences for ZMYM3 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with ZMYM3: view

No data available for UniProtKB/Swiss-Prot for ZMYM3 Gene

Function for ZMYM3 Gene

Molecular function for ZMYM3 Gene

UniProtKB/Swiss-Prot Function:
Plays a role in the regulation of cell morphology and cytoskeletal organization.

Gene Ontology (GO) - Molecular Function for ZMYM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding IBA --
GO:0003677 DNA binding TAS 10486218
GO:0008270 zinc ion binding IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZMYM3: view
genes like me logo Genes that share phenotypes with ZMYM3: view

Animal Model Products

CRISPR Products

miRNA for ZMYM3 Gene

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ZMYM3 Gene

Localization for ZMYM3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZMYM3 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for ZMYM3 gene
Compartment Confidence
nucleus 5
plasma membrane 1
extracellular 1
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for ZMYM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IBA --
GO:0005737 cytoplasm IBA --
genes like me logo Genes that share ontologies with ZMYM3: view

Pathways & Interactions for ZMYM3 Gene

SuperPathways for ZMYM3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for ZMYM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006357 regulation of transcription from RNA polymerase II promoter IEA --
GO:0007010 cytoskeleton organization IMP 21834987
GO:0007275 multicellular organism development TAS 10486218
GO:0022604 regulation of cell morphogenesis IMP 21834987
genes like me logo Genes that share ontologies with ZMYM3: view

No data available for Pathways by source and SIGNOR curated interactions for ZMYM3 Gene

Drugs & Compounds for ZMYM3 Gene

No Compound Related Data Available

Transcripts for ZMYM3 Gene

Unigene Clusters for ZMYM3 Gene

Zinc finger, MYM-type 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for ZMYM3 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6a · 6b ^ 7a · 7b ^ 8 ^ 9a · 9b ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19a · 19b ^ 20a ·
SP1: - - -
SP2: - -
SP3:
SP4: - - - - - - - - - -
SP5:
SP6:
SP7:

ExUns: 20b · 20c ^ 21 ^ 22a · 22b ^ 23a · 23b ^ 24 ^ 25
SP1: - -
SP2:
SP3:
SP4:
SP5: -
SP6:
SP7:

Relevant External Links for ZMYM3 Gene

GeneLoc Exon Structure for
ZMYM3
ECgene alternative splicing isoforms for
ZMYM3

Expression for ZMYM3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ZMYM3 Gene

Protein differential expression in normal tissues from HIPED for ZMYM3 Gene

This gene is overexpressed in Platelet (19.5), Fetal ovary (10.1), Blymphocyte (9.8), and Fetal Brain (7.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for ZMYM3 Gene



Protein tissue co-expression partners for ZMYM3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of ZMYM3 Gene:

ZMYM3

SOURCE GeneReport for Unigene cluster for ZMYM3 Gene:

Hs.522684

mRNA Expression by UniProt/SwissProt for ZMYM3 Gene:

Q14202-ZMYM3_HUMAN
Tissue specificity: Most abundant in brain, moderate in muscle and heart, low in other tissues except placenta.

Evidence on tissue expression from TISSUES for ZMYM3 Gene

  • Nervous system(4.7)
  • Liver(4.2)
  • Muscle(4.2)
genes like me logo Genes that share expression patterns with ZMYM3: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for ZMYM3 Gene

Orthologs for ZMYM3 Gene

This gene was present in the common ancestor of animals.

Orthologs for ZMYM3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ZMYM3 34
  • 97 (a)
OneToOne
dog
(Canis familiaris)
Mammalia ZMYM3 33 34
  • 94.77 (n)
cow
(Bos Taurus)
Mammalia ZMYM3 33 34
  • 94.7 (n)
mouse
(Mus musculus)
Mammalia Zmym3 33 16 34
  • 92.51 (n)
rat
(Rattus norvegicus)
Mammalia Zmym3 33
  • 92.37 (n)
oppossum
(Monodelphis domestica)
Mammalia ZMYM3 34
  • 87 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 35 (a)
ManyToMany
chicken
(Gallus gallus)
Aves ZMYM3 33 34
  • 73.64 (n)
lizard
(Anolis carolinensis)
Reptilia ZMYM3 34
  • 68 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia zmym3 33
  • 69.09 (n)
Str.19029 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.11236 33
fruit fly
(Drosophila melanogaster)
Insecta woc 34
  • 22 (a)
OneToMany
Species where no ortholog for ZMYM3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for ZMYM3 Gene

ENSEMBL:
Gene Tree for ZMYM3 (if available)
TreeFam:
Gene Tree for ZMYM3 (if available)

Paralogs for ZMYM3 Gene

Paralogs for ZMYM3 Gene

(2) SIMAP similar genes for ZMYM3 Gene using alignment to 7 proteins:

genes like me logo Genes that share paralogs with ZMYM3: view

Variants for ZMYM3 Gene

Sequence variations from dbSNP and Humsavar for ZMYM3 Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type
rs139405380 Uncertain significance 71,253,061(+) TCCAG(C/G)CCAGC upstream-variant-2KB, reference, synonymous-codon
rs142437272 Uncertain significance 71,240,964(+) ATCTC(A/G)CGCAC reference, synonymous-codon
rs375862549 Uncertain significance 71,242,420(+) AACAC(C/T)GTATC reference, synonymous-codon
rs587777358 Uncertain significance 71,249,610(+) GGCCC(A/G)GAATT reference, missense
rs879255361 Uncertain significance 71,241,267(-) CCCTC(C/T)GCTGC reference, missense

Structural Variations from Database of Genomic Variants (DGV) for ZMYM3 Gene

Variant ID Type Subtype PubMed ID
esv1584074 OTHER inversion 17803354
esv33082 CNV loss 17666407
nsv508781 CNV insertion 20534489

Variation tolerance for ZMYM3 Gene

Residual Variation Intolerance Score: 6.95% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.41; 27.79% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for ZMYM3 Gene

Human Gene Mutation Database (HGMD)
ZMYM3
SNPedia medical, phenotypic, and genealogical associations of SNPs for
ZMYM3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZMYM3 Gene

Disorders for ZMYM3 Gene

MalaCards: The human disease database

(3) MalaCards diseases for ZMYM3 Gene - From: HGMD and DISEASES

Disorder Aliases PubMed IDs
dystonia-parkinsonism, x-linked
  • x-linked dystonia-parkinsonism
myasthenic syndrome, congenital, 6, presynaptic
  • cms1a
allan-herndon-dudley syndrome
  • allan-herndon syndrome
- elite association - COSMIC cancer census association via MalaCards
Search ZMYM3 in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

ZMYM3_HUMAN
  • Note=A chromosomal aberration involving ZMYM3 may be a cause of X-linked mental retardation in Xq13.1. Translocation t(X;13)(q13.1;?). {ECO:0000269 PubMed:8817323}.

Relevant External Links for ZMYM3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
ZMYM3
genes like me logo Genes that share disorders with ZMYM3: view

No data available for Genatlas for ZMYM3 Gene

Publications for ZMYM3 Gene

  1. Cloning and characterization of DXS6673E, a candidate gene for X-linked mental retardation in Xq13.1. (PMID: 8817323) van der Maarel SM … Ropers HH (Human molecular genetics 1996) 3 4 22 60
  2. Identification and characterization of a set of conserved and new regulators of cytoskeletal organization, cell morphology and migration. (PMID: 21834987) Bai SW … Ridley AJ (BMC biology 2011) 3 4 60
  3. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen JV … Mann M (Cell 2006) 3 4 60
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 60
  5. A candidate X-linked mental retardation gene is a component of a new family of histone deacetylase-containing complexes. (PMID: 12493763) Hakimi MA … Shiekhattar R (The Journal of biological chemistry 2003) 3 4 60

Products for ZMYM3 Gene

Sources for ZMYM3 Gene

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