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Aliases for ZIM3 Gene

Aliases for ZIM3 Gene

  • Zinc Finger Imprinted 3 2 3 5
  • Zinc Finger Protein 657 3 4
  • ZNF657 3 4

External Ids for ZIM3 Gene

Previous GeneCards Identifiers for ZIM3 Gene

  • GC19M058544
  • GC19M058099
  • GC19M062321
  • GC19M062337
  • GC19M057645
  • GC19M053958

Summaries for ZIM3 Gene

GeneCards Summary for ZIM3 Gene

ZIM3 (Zinc Finger Imprinted 3) is a Protein Coding gene. Among its related pathways are Gene Expression. GO annotations related to this gene include nucleic acid binding and transcription factor activity, sequence-specific DNA binding. An important paralog of this gene is ZNF793.

UniProtKB/Swiss-Prot for ZIM3 Gene

  • May be involved in transcriptional regulation.

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ZIM3 Gene

Genomics for ZIM3 Gene

Regulatory Elements for ZIM3 Gene

Enhancers for ZIM3 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
GH19G057103 1.1 Ensembl ENCODE 10.7 +41.1 41140 0.5 CTCF CBX3 SAP130 ARID4B MAX RAD21 GATAD1 CBX5 PATZ1 SCRT2 ZNF805 ZNF256 ZNF134 ZNF550 ZNF773 ZNF264 ZNF417 ENSG00000268392 ZNF543 ZIM3
GH19G057190 1 ENCODE 11.2 -46.6 -46604 1.9 PKNOX1 WRNIP1 ARID4B SIN3A DMAP1 ZNF48 YY1 CBX5 ZNF143 ZNF207 ZNF548 ZNF417 ZNF134 AURKC ZNF773 ZNF550 ZNF264 ZIM3 ZNF805 ZNF256
GH19G057099 0.9 ENCODE 11.1 +45.9 45875 0.2 ELF3 CBX3 PTBP1 TBL1XR1 ARID4B ZNF48 ZSCAN9 RAD21 GTF3C2 ZNF143 ZNF805 ZNF264 ZNF587B ZNF134 ZNF587 ZNF548 ZNF417 ZNF543 ZIM3 ZNF550
GH19G057095 0.7 ENCODE 11.1 +48.3 48254 2.5 SOX13 GATAD2A TFAP4 FOXA2 SAP130 TEAD1 FOXA3 CEBPB TEAD3 KAT8 USP29 ZIM3 PEG3 ZIM2 AURKC ZNF805 ZNF418 ZNF814 ZNF417 LOC100128398
GH19G056698 0.5 dbSUPER 10 +445.4 445443 1.7 MXI1 RFX1 HLF ZIM3 USP29 LOC105372476 SMIM17 GC19P056696 LOC105372472
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around ZIM3 on UCSC Golden Path with GeneCards custom track

Genomic Location for ZIM3 Gene

Chromosome:
19
Start:
57,134,096 bp from pter
End:
57,145,202 bp from pter
Size:
11,107 bases
Orientation:
Minus strand

Genomic View for ZIM3 Gene

Genes around ZIM3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZIM3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZIM3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZIM3 Gene

Proteins for ZIM3 Gene

  • Protein details for ZIM3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96PE6-ZIM3_HUMAN
    Recommended name:
    Zinc finger imprinted 3
    Protein Accession:
    Q96PE6
    Secondary Accessions:
    • Q14CA6

    Protein attributes for ZIM3 Gene

    Size:
    472 amino acids
    Molecular mass:
    54498 Da
    Quaternary structure:
    No Data Available

neXtProt entry for ZIM3 Gene

Post-translational modifications for ZIM3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for ZIM3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for ZIM3 Gene

Domains & Families for ZIM3 Gene

Gene Families for ZIM3 Gene

Protein Domains for ZIM3 Gene

Suggested Antigen Peptide Sequences for ZIM3 Gene

Graphical View of Domain Structure for InterPro Entry

Q96PE6

UniProtKB/Swiss-Prot:

ZIM3_HUMAN :
  • Belongs to the krueppel C2H2-type zinc-finger protein family.
Family:
  • Belongs to the krueppel C2H2-type zinc-finger protein family.
genes like me logo Genes that share domains with ZIM3: view

Function for ZIM3 Gene

Molecular function for ZIM3 Gene

UniProtKB/Swiss-Prot Function:
May be involved in transcriptional regulation.

Gene Ontology (GO) - Molecular Function for ZIM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0003700 transcription factor activity, sequence-specific DNA binding IBA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZIM3: view
genes like me logo Genes that share phenotypes with ZIM3: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for ZIM3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for ZIM3 Gene

Localization for ZIM3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZIM3 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 ZIM3 gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for ZIM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with ZIM3: view

Pathways & Interactions for ZIM3 Gene

SuperPathway Contained pathways
1 Gene Expression
genes like me logo Genes that share pathways with ZIM3: view

Pathways by source for ZIM3 Gene

2 Reactome pathways for ZIM3 Gene

Interacting Proteins for ZIM3 Gene

Gene Ontology (GO) - Biological Process for ZIM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IBA --
genes like me logo Genes that share ontologies with ZIM3: view

No data available for SIGNOR curated interactions for ZIM3 Gene

Drugs & Compounds for ZIM3 Gene

No Compound Related Data Available

Transcripts for ZIM3 Gene

mRNA/cDNA for ZIM3 Gene

(1) REFSEQ mRNAs :
(3) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for ZIM3

Alternative Splicing Database (ASD) splice patterns (SP) for ZIM3 Gene

No ASD Table

Relevant External Links for ZIM3 Gene

GeneLoc Exon Structure for
ZIM3
ECgene alternative splicing isoforms for
ZIM3

Expression for ZIM3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ZIM3 Gene

mRNA differential expression in normal tissues according to GTEx for ZIM3 Gene

This gene is overexpressed in Testis (x46.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for ZIM3 Gene



NURSA nuclear receptor signaling pathways regulating expression of ZIM3 Gene:

ZIM3

SOURCE GeneReport for Unigene cluster for ZIM3 Gene:

Hs.348622
genes like me logo Genes that share expression patterns with ZIM3: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for ZIM3 Gene

Orthologs for ZIM3 Gene

This gene was present in the common ancestor of animals.

Orthologs for ZIM3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ZIM3 34 35
  • 98.87 (n)
mouse
(Mus musculus)
Mammalia Zfp819 35
  • 29 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 30 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta CG10543 36
  • 33 (a)
Species where no ortholog for ZIM3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • 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)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for ZIM3 Gene

ENSEMBL:
Gene Tree for ZIM3 (if available)
TreeFam:
Gene Tree for ZIM3 (if available)

Paralogs for ZIM3 Gene

Paralogs for ZIM3 Gene

(493) SIMAP similar genes for ZIM3 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with ZIM3: view

Variants for ZIM3 Gene

Sequence variations from dbSNP and Humsavar for ZIM3 Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs1000267113 -- 57,136,022(+) ATTGA(C/T)GGGAC reference, synonymous-codon
rs1000576906 -- 57,133,598(+) GAGGA(A/G)AAGAA downstream-variant-500B
rs1000754016 -- 57,138,442(+) GTTTT(A/G)AGTCC intron-variant
rs1000926292 -- 57,143,451(+) AAGGC(C/G)GAGAG intron-variant
rs1001581241 -- 57,140,743(+) CTGGG(A/T)TTACA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for ZIM3 Gene

Variant ID Type Subtype PubMed ID
esv2280796 CNV deletion 18987734
esv2719067 CNV deletion 23290073
esv3556684 CNV deletion 23714750
esv3644892 CNV gain 21293372
esv3893256 CNV loss 25118596
nsv1064109 CNV gain 25217958
nsv528378 CNV loss 19592680
nsv817876 CNV gain 17921354

Variation tolerance for ZIM3 Gene

Residual Variation Intolerance Score: 95.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 11.24; 92.48% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for ZIM3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ZIM3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZIM3 Gene

Disorders for ZIM3 Gene

Relevant External Links for ZIM3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
ZIM3

No disorders were found for ZIM3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ZIM3 Gene

Publications for ZIM3 Gene

  1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  2. Imprinting and evolution of two Kruppel-type zinc-finger genes, ZIM3 and ZNF264, located in the PEG3/USP29 imprinted domain. (PMID: 11543637) Kim J. … Stubbs L. (Genomics 2001) 3 4 64
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3 64

Products for ZIM3 Gene

Sources for ZIM3 Gene

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