U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

ZIM3 zinc finger imprinted 3 [ Homo sapiens (human) ]

Gene ID: 114026, updated on 25-Nov-2025
Official Symbol
ZIM3provided by HGNC
Official Full Name
zinc finger imprinted 3provided by HGNC
Primary source
HGNC:HGNC:16366
See related
Ensembl:ENSG00000141946 AllianceGenome:HGNC:16366
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
ZNF264; ZNF657
Summary
Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Jul 2025]
Expression
Low expression observed in reference dataset See more
Orthologs
all
NEW
Try the new Gene table
Try the new Transcript table
See ZIM3 in Genome Data Viewer
Location:
19q13.43
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2025_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (57134096..57145202, complement)
RS_2025_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (60230761..60241869, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (57645464..57656570, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene zinc finger protein 300 pseudogene Neighboring gene ubiquitin specific peptidase 29 Neighboring gene small nucleolar RNA U3 Neighboring gene DPPA3 pseudogene 8 Neighboring gene double homeobox A

Go to nucleotide: Graphics FASTA GenBank

  • Project title: Tissue-specific circular RNA induction during human fetal development
  • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
  • BioProject: PRJNA270632
  • Publication: PMID 26076956
  • Analysis date: Mon Apr 2 22:54:59 2018

Related articles in PubMed

  1. Imprinting and evolution of two Kruppel-type zinc-finger genes, ZIM3 and ZNF264, located in the PEG3/USP29 imprinted domain. Kim J, et al. Genomics, 2001 Sep. PMID 11543637
  2. La-related Protein 1 (LARP1) Represses Terminal Oligopyrimidine (TOP) mRNA Translation Downstream of mTOR Complex 1 (mTORC1). Fonseca BD, et al. J Biol Chem, 2015 Jun 26. PMID 25940091, Free PMC Article
  3. Estrogen-regulated feedback loop limits the efficacy of estrogen receptor-targeted breast cancer therapy. Xiao T, et al. Proc Natl Acad Sci U S A, 2018 Jul 31. PMID 29987050, Free PMC Article
  4. EndoMAP.v1 charts the structural landscape of human early endosome complexes. Gonzalez-Lozano MA, et al. Nature, 2025 Jul. PMID 40437099, Free PMC Article
  5. A reference map of the human binary protein interactome. Luck K, et al. Nature, 2020 Apr. PMID 32296183, Free PMC Article

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Clone Names

  • MGC138876, MGC138877

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of gene expression IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of primary metabolic process IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
Preferred Names
zinc finger imprinted 3
Names
Zinc finger protein 264
zinc finger protein 657

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.

mRNA and Protein(s)

  1. NM_052882.1 → NP_443114.1  zinc finger imprinted 3

    See identical proteins and their annotated locations for NP_443114.1

    Status: VALIDATED

    Source sequence(s)
    AF365931
    Consensus CDS
    CCDS33125.1
    UniProtKB/Swiss-Prot
    Q14CA6, Q96PE6
    Related
    ENSP00000269834.1, ENST00000269834.1
    Conserved Domains (5) summary
    smart00349
    Location:8 → 68
    KRAB; krueppel associated box
    COG5048
    Location:304 → 465
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:281 → 301
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam13465
    Location:237 → 261
    zf-H2C2_2; Zinc-finger double domain
    pfam15909
    Location:172 → 241
    zf-C2H2_8; C2H2-type zinc ribbon

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2025_08

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
    57134096..57145202 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    60230761..60241869 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q96PE6.1 GenPept UniProtKB/Swiss-Prot:Q96PE6

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools
Miscellaneous