In human, ZIM2 and PEG3 (GeneID:5178) are two distinct genes that share a set of 5' exons and have a common promoter, and both genes are paternally expressed. Alternative splicing events connect the shared exons either with the remaining 4 exons unique to ZIM2, or with the remaining 2 exons unique to PEG3. This is in contrast to mouse and cow, where ZIM2 and PEG3 genes do not s... See more...

Aliases for ZIM2 Gene

Aliases for ZIM2 Gene

  • Zinc Finger Imprinted 2 2 3 4 5
  • ZNF656 2 3 4
  • Zinc Finger Protein 656 3 4
  • ZIM2 5

External Ids for ZIM2 Gene

Previous GeneCards Identifiers for ZIM2 Gene

  • GC19M058168
  • GC19M057740
  • GC19M061851
  • GC19M061978
  • GC19M061395
  • GC19M061979
  • GC19M061980
  • GC19M057289
  • GC19M057290

Summaries for ZIM2 Gene

Entrez Gene Summary for ZIM2 Gene

  • In human, ZIM2 and PEG3 (GeneID:5178) are two distinct genes that share a set of 5' exons and have a common promoter, and both genes are paternally expressed. Alternative splicing events connect the shared exons either with the remaining 4 exons unique to ZIM2, or with the remaining 2 exons unique to PEG3. This is in contrast to mouse and cow, where ZIM2 and PEG3 genes do not share exons in common, and the imprinting status of ZIM2 is also not conserved amongst mammals. Additional 5' alternatively spliced transcripts encoding the same protein have been found for the human ZIM2 gene. [provided by RefSeq, Oct 2010]

GeneCards Summary for ZIM2 Gene

ZIM2 (Zinc Finger Imprinted 2) is a Protein Coding gene. Among its related pathways are Gene Expression. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and DNA-binding transcription factor activity. An important paralog of this gene is ZFP14.

UniProtKB/Swiss-Prot Summary for ZIM2 Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for ZIM2 Gene

Genomics for ZIM2 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for ZIM2 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around ZIM2 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for ZIM2

Top Transcription factor binding sites by QIAGEN in the ZIM2 gene promoter:
  • AML1a
  • CREB
  • deltaCREB
  • FOXF2
  • GATA-1
  • Sp1

Genomic Locations for ZIM2 Gene

Genomic Locations for ZIM2 Gene
chr19:56,774,547-56,840,729
(GRCh38/hg38)
Size:
66,183 bases
Orientation:
Minus strand
chr19:57,285,915-57,352,097
(GRCh37/hg19)
Size:
66,183 bases
Orientation:
Minus strand

Genomic View for ZIM2 Gene

Genes around ZIM2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZIM2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZIM2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZIM2 Gene

Proteins for ZIM2 Gene

  • Protein details for ZIM2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NZV7-ZIM2_HUMAN
    Recommended name:
    Zinc finger imprinted 2
    Protein Accession:
    Q9NZV7
    Secondary Accessions:
    • Q2M3K1

    Protein attributes for ZIM2 Gene

    Size:
    527 amino acids
    Molecular mass:
    61164 Da
    Quaternary structure:
    No Data Available

neXtProt entry for ZIM2 Gene

Post-translational modifications for ZIM2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for ZIM2 Gene

Domains & Families for ZIM2 Gene

Gene Families for ZIM2 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Transcription factors

Protein Domains for ZIM2 Gene

InterPro:
Blocks:
  • KRAB box
ProtoNet:

Suggested Antigen Peptide Sequences for ZIM2 Gene

GenScript: Design optimal peptide antigens:
  • Zinc finger protein 656 (ZIM2_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9NZV7

UniProtKB/Swiss-Prot:

ZIM2_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 ZIM2: view

Function for ZIM2 Gene

Molecular function for ZIM2 Gene

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

Phenotypes From GWAS Catalog for ZIM2 Gene

Gene Ontology (GO) - Molecular Function for ZIM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IEA --
GO:0003700 DNA-binding transcription factor activity IBA 21873635
GO:0008270 zinc ion binding NAS 10708526
GO:0043565 sequence-specific DNA binding IBA 21873635
genes like me logo Genes that share ontologies with ZIM2: view
genes like me logo Genes that share phenotypes with ZIM2: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ZIM2

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for ZIM2 Gene

Localization for ZIM2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZIM2 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 ZIM2 gene
Compartment Confidence
nucleus 3
cytoskeleton 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nuclear speckles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for ZIM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
GO:0005634 nucleus IBA 21873635
genes like me logo Genes that share ontologies with ZIM2: view

Pathways & Interactions for ZIM2 Gene

PathCards logo

SuperPathways for ZIM2 Gene

SuperPathway Contained pathways
1 Gene Expression
genes like me logo Genes that share pathways with ZIM2: view

Pathways by source for ZIM2 Gene

2 Reactome pathways for ZIM2 Gene

Gene Ontology (GO) - Biological Process for ZIM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006355 regulation of transcription, DNA-templated NAS 10708526
genes like me logo Genes that share ontologies with ZIM2: view

No data available for SIGNOR curated interactions for ZIM2 Gene

Drugs & Compounds for ZIM2 Gene

No Compound Related Data Available

Transcripts for ZIM2 Gene

mRNA/cDNA for ZIM2 Gene

8 REFSEQ mRNAs :
7 NCBI additional mRNA sequence :
9 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ZIM2

Alternative Splicing Database (ASD) splice patterns (SP) for ZIM2 Gene

No ASD Table

Relevant External Links for ZIM2 Gene

GeneLoc Exon Structure for
ZIM2

Expression for ZIM2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for ZIM2 Gene

mRNA differential expression in normal tissues according to GTEx for ZIM2 Gene

This gene is overexpressed in Testis (x17.4) and Ovary (x5.2).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for ZIM2

mRNA Expression by UniProt/SwissProt for ZIM2 Gene:

Q9NZV7-ZIM2_HUMAN
Tissue specificity: Highest levels of expression in adult testis; modest levels in fetal kidney and brain.

Evidence on tissue expression from TISSUES for ZIM2 Gene

  • Nervous system(4.3)
genes like me logo Genes that share expression patterns with ZIM2: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for ZIM2 Gene

Orthologs for ZIM2 Gene

This gene was present in the common ancestor of mammals.

Orthologs for ZIM2 Gene

Organism Taxonomy Gene Similarity Type Details
Dog
(Canis familiaris)
Mammalia LOC102154522 30
  • 80.75 (n)
ZIM2 31
  • 63 (a)
OneToOne
Cow
(Bos Taurus)
Mammalia ZIM2 30 31
  • 76.32 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia -- 31
  • 29 (a)
OneToMany
Species where no ortholog for ZIM2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • Chimpanzee (Pan troglodytes)
  • 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)
  • Fruit Fly (Drosophila melanogaster)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Lizard (Anolis carolinensis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Mouse (Mus musculus)
  • Oppossum (Monodelphis domestica)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rat (Rattus norvegicus)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (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 ZIM2 Gene

ENSEMBL:
Gene Tree for ZIM2 (if available)
TreeFam:
Gene Tree for ZIM2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for ZIM2: view image

Paralogs for ZIM2 Gene

Paralogs for ZIM2 Gene

(15) SIMAP similar genes for ZIM2 Gene using alignment to 4 proteins:

  • ZIM2_HUMAN
  • M0QXH8_HUMAN
  • M0QXI3_HUMAN
  • M0R155_HUMAN
genes like me logo Genes that share paralogs with ZIM2: view

Variants for ZIM2 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for ZIM2 Gene

SNP ID Clinical significance and condition Chr 19 pos Variation AA Info Type
708731 Likely Benign: not provided 56,822,788(-) C/T MISSENSE_VARIANT,NON_CODING_TRANSCRIPT_VARIANT
710654 Likely Benign: not provided 56,823,647(-) C/T MISSENSE_VARIANT,NON_CODING_TRANSCRIPT_VARIANT
712015 Benign: not provided 56,823,683(-) A/C INTRON_VARIANT
713237 Likely Benign: not provided 56,814,572(-) A/T SYNONYMOUS_VARIANT,INTRON_VARIANT
713664 Benign: not provided 56,814,509(-) G/A SYNONYMOUS_VARIANT,INTRON_VARIANT

Additional dbSNP identifiers (rs#s) for ZIM2 Gene

Structural Variations from Database of Genomic Variants (DGV) for ZIM2 Gene

Variant ID Type Subtype PubMed ID
esv3644878 CNV loss 21293372
nsv474697 CNV novel sequence insertion 20440878
nsv478290 CNV novel sequence insertion 20440878
nsv833884 CNV loss 17160897

Variation tolerance for ZIM2 Gene

Residual Variation Intolerance Score: 89.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.89; 59.17% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ZIM2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ZIM2

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZIM2 Gene

Disorders for ZIM2 Gene

No disorders were found for ZIM2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ZIM2 Gene

Publications for ZIM2 Gene

  1. 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
  2. Exon sharing of a novel human zinc-finger gene, ZIM2, and paternally expressed gene 3 (PEG3). (PMID: 10708526) Kim J … Stubbs L (Genomics 2000) 3 4
  3. A reference map of the human binary protein interactome. (PMID: 32296183) Luck K … Calderwood MA (Nature 2020) 3
  4. The HIV-1 Tat protein recruits a ubiquitin ligase to reorganize the 7SK snRNP for transcriptional activation. (PMID: 29845934) Faust TB … Frankel AD (eLife 2018) 3
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3

Products for ZIM2 Gene

Sources for ZIM2 Gene