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    ZIM2 zinc finger imprinted 2 [ Homo sapiens (human) ]

    Gene ID: 23619, updated on 8-Dec-2022

    Summary

    Official Symbol
    ZIM2provided by HGNC
    Official Full Name
    zinc finger imprinted 2provided by HGNC
    Primary source
    HGNC:HGNC:12875
    See related
    Ensembl:ENSG00000269699 AllianceGenome:HGNC:12875
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    ZNF656
    Summary
    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]
    Expression
    Biased expression in ovary (RPKM 34.2), placenta (RPKM 19.3) and 4 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See ZIM2 in Genome Data Viewer
    Location:
    19q13.43
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    110 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (56774547..56840726, complement)
    110 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (59869633..59935794, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (57285915..57352094, complement)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105372473 Neighboring gene uncharacterized LOC105372472 Neighboring gene olfactory receptor family 5 subfamily AH member 1 pseudogene Neighboring gene ZIM2 antisense RNA 1 Neighboring gene PEG3 antisense RNA 1 Neighboring gene paternally expressed 3 Neighboring gene MER1 repeat containing imprinted transcript 1 Neighboring gene uncharacterized LOC124904779

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Phenotypes

    Copy number response

    Description
    Copy number response
    Haploinsufficency

    No evidence available (Last evaluated 2012-05-17)

    ClinGen Genome Curation Page
    Triplosensitivity

    No evidence available (Last evaluated 2012-05-17)

    ClinGen Genome Curation Page

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables zinc ion binding NAS
    Non-traceable Author Statement
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in regulation of DNA-templated transcription NAS
    Non-traceable Author Statement
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
     
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    zinc finger imprinted 2
    Names
    zinc finger protein 656

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_012989.1 RefSeqGene

      Range
      5004..71183
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001146326.2NP_001139798.1  zinc finger imprinted 2 isoform b

      See identical proteins and their annotated locations for NP_001139798.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) contains an additional 5' non-coding exon, therefore, differs in the 5' UTR compared to variant 1. Variants 1-6, 14, and 15 all encode the same isoform (b).
      Source sequence(s)
      AF166122, AI418432, BC104876, DC400394
      Consensus CDS
      CCDS33123.1
      UniProtKB/Swiss-Prot
      Q2M3K1, Q9NZV7
      UniProtKB/TrEMBL
      A0A024R4S8
      Related
      ENSP00000470326.1, ENST00000601070.5
      Conserved Domains (4) summary
      smart00349
      Location:176232
      KRAB; krueppel associated box
      sd00017
      Location:414434
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:466488
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:342365
      zf-H2C2_2; Zinc-finger double domain
    2. NM_001146327.2NP_001139799.1  zinc finger imprinted 2 isoform b

      See identical proteins and their annotated locations for NP_001139799.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) contains an additional 5' non-coding exon and uses a different acceptor splice site at one of the 5' non-coding exons, therefore, differs in the 5' UTR compared to variant 1. Variants 1-6, 14, and 15 all encode the same isoform (b).
      Source sequence(s)
      AF166122, AI418432, BC104878, DC400394
      Consensus CDS
      CCDS33123.1
      UniProtKB/Swiss-Prot
      Q2M3K1, Q9NZV7
      UniProtKB/TrEMBL
      A0A024R4S8
      Conserved Domains (4) summary
      smart00349
      Location:176232
      KRAB; krueppel associated box
      sd00017
      Location:414434
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:466488
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:342365
      zf-H2C2_2; Zinc-finger double domain
    3. NM_001369770.1NP_001356699.1  zinc finger imprinted 2 isoform b

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4), as well as variants 1-3, 5, 6, 14, and 15, encodes isoform b.
      Source sequence(s)
      AC006115
      Consensus CDS
      CCDS33123.1
      UniProtKB/Swiss-Prot
      Q2M3K1
      UniProtKB/TrEMBL
      A0A024R4S8
      Related
      ENSP00000468984.1, ENST00000599935.5
      Conserved Domains (4) summary
      smart00349
      Location:176232
      KRAB; krueppel associated box
      sd00017
      Location:414434
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:466488
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:342365
      zf-H2C2_2; Zinc-finger double domain
    4. NM_001369771.1NP_001356700.1  zinc finger imprinted 2 isoform b

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5), as well as variants 1-4, 6, 14, and 15, encodes isoform b.
      Source sequence(s)
      AC006115
      Consensus CDS
      CCDS33123.1
      UniProtKB/Swiss-Prot
      Q2M3K1
      UniProtKB/TrEMBL
      A0A024R4S8
      Conserved Domains (4) summary
      smart00349
      Location:176232
      KRAB; krueppel associated box
      sd00017
      Location:414434
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:466488
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:342365
      zf-H2C2_2; Zinc-finger double domain
    5. NM_001369772.1NP_001356701.1  zinc finger imprinted 2 isoform b

      Status: REVIEWED

      Description
      Transcript Variant: This variant (6), as well as variants 1-5, 14, and 15, encodes isoform b.
      Source sequence(s)
      AC006115
      Consensus CDS
      CCDS33123.1
      UniProtKB/Swiss-Prot
      Q2M3K1
      UniProtKB/TrEMBL
      A0A024R4S8
      Related
      ENSP00000472306.1, ENST00000593711.6
      Conserved Domains (4) summary
      smart00349
      Location:176232
      KRAB; krueppel associated box
      sd00017
      Location:414434
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:466488
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:342365
      zf-H2C2_2; Zinc-finger double domain
    6. NM_001369773.1NP_001356702.1  zinc finger imprinted 2 isoform a

      Status: REVIEWED

      Description
      Transcript Variant: This variant (7), as well as variants 8 and 13, encodes the longer isoform (a).
      Source sequence(s)
      AC006115
      Consensus CDS
      CCDS92697.1
      UniProtKB/TrEMBL
      A0A8I5KWX0
      Related
      ENSP00000510784.1, ENST00000689654.1
      Conserved Domains (4) summary
      smart00349
      Location:207263
      KRAB; krueppel associated box
      sd00017
      Location:445465
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:497519
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:373396
      zf-H2C2_2; Zinc-finger double domain
    7. NM_001369774.1NP_001356703.1  zinc finger imprinted 2 isoform a

      Status: REVIEWED

      Description
      Transcript Variant: This variant (8), as well as variants 7 and 13, encodes the longer isoform (a).
      Source sequence(s)
      AC006115
      Consensus CDS
      CCDS92697.1
      UniProtKB/TrEMBL
      A0A8I5KWX0
      Conserved Domains (4) summary
      smart00349
      Location:207263
      KRAB; krueppel associated box
      sd00017
      Location:445465
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:497519
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:373396
      zf-H2C2_2; Zinc-finger double domain
    8. NM_001387356.1NP_001374285.1  zinc finger imprinted 2 isoform a

      Status: REVIEWED

      Description
      Transcript Variant: This variant (13), as well as variants 7 and 8, encodes the longer isoform (a).
      Source sequence(s)
      AC006115
      Consensus CDS
      CCDS92697.1
      UniProtKB/TrEMBL
      A0A8I5KWX0
      Related
      ENSP00000486502.2, ENST00000629319.3
      Conserved Domains (4) summary
      smart00349
      Location:207263
      KRAB; krueppel associated box
      sd00017
      Location:445465
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:497519
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:373396
      zf-H2C2_2; Zinc-finger double domain
    9. NM_001387357.1NP_001374286.1  zinc finger imprinted 2 isoform b

      Status: REVIEWED

      Description
      Transcript Variant: This variant (14), as well as variants 1-6 and 15, encodes isoform b.
      Source sequence(s)
      AC006115
      Consensus CDS
      CCDS33123.1
      UniProtKB/Swiss-Prot
      Q2M3K1
      UniProtKB/TrEMBL
      A0A024R4S8
      Conserved Domains (4) summary
      smart00349
      Location:176232
      KRAB; krueppel associated box
      sd00017
      Location:414434
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:466488
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:342365
      zf-H2C2_2; Zinc-finger double domain
    10. NM_001387358.1NP_001374287.1  zinc finger imprinted 2 isoform b

      Status: REVIEWED

      Description
      Transcript Variant: This variant (15), as well as variants 1-6 and 14, encodes isoform b.
      Source sequence(s)
      AC006115
      Consensus CDS
      CCDS33123.1
      UniProtKB/Swiss-Prot
      Q2M3K1
      UniProtKB/TrEMBL
      A0A024R4S8
      Conserved Domains (4) summary
      smart00349
      Location:176232
      KRAB; krueppel associated box
      sd00017
      Location:414434
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:466488
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:342365
      zf-H2C2_2; Zinc-finger double domain
    11. NM_015363.5NP_056178.3  zinc finger imprinted 2 isoform b

      See identical proteins and their annotated locations for NP_056178.3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) was originally described as the ZIM2 transcript (PMID:10708526). Variants 1-6, 14, and 15 all encode the same isoform (b).
      Source sequence(s)
      AF166122, AI418432, DC400394
      Consensus CDS
      CCDS33123.1
      UniProtKB/Swiss-Prot
      Q2M3K1, Q9NZV7
      UniProtKB/TrEMBL
      A0A024R4S8
      Conserved Domains (4) summary
      smart00349
      Location:176232
      KRAB; krueppel associated box
      sd00017
      Location:414434
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:466488
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:342365
      zf-H2C2_2; Zinc-finger double domain

    RNA

    1. NR_163140.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC006115
      Related
      ENST00000693159.1
    2. NR_163141.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC006115
      Related
      ENST00000595671.5
    3. NR_163142.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC006115
    4. NR_163143.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC006115
      Related
      ENST00000650111.1

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      56774547..56840726 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      59869633..59935794 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)