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ING3 inhibitor of growth family member 3 [ Homo sapiens (human) ]

Gene ID: 54556, updated on 7-Apr-2024

Summary

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Official Symbol
ING3provided by HGNC
Official Full Name
inhibitor of growth family member 3provided by HGNC
Primary source
HGNC:HGNC:14587
See related
Ensembl:ENSG00000071243 MIM:607493; AllianceGenome:HGNC:14587
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
Eaf4; ING2; MEAF4; p47ING3
Summary
The protein encoded by this gene is similar to ING1, a tumor suppressor protein that can interact with TP53, inhibit cell growth, and induce apoptosis. This protein contains a PHD-finger, which is a common motif in proteins involved in chromatin remodeling. This gene can activate p53 trans-activated promoters, including promoters of p21/waf1 and bax. Overexpression of this gene has been shown to inhibit cell growth and induce apoptosis. Allelic loss and reduced expression of this gene were detected in head and neck cancers. Two alternatively spliced transcript variants encoding different isoforms have been observed. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in bone marrow (RPKM 18.3), lymph node (RPKM 6.0) and 24 other tissues See more
Orthologs
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Genomic context

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Location:
7q31.31
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (120950777..120977216)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (122266123..122292563)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (120590831..120617270)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene potassium voltage-gated channel subfamily D member 2 Neighboring gene RNA, U6 small nuclear 581, pseudogene Neighboring gene NANOG hESC enhancer GRCh37_chr7:120422555-120423072 Neighboring gene Sharpr-MPRA regulatory region 15278 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18572 Neighboring gene tetraspanin 12 Neighboring gene uncharacterized LOC124901733 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:120497141-120497360 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18573 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:120508165-120508289 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26555 Neighboring gene uncharacterized LOC124901734 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26556 Neighboring gene RNA, 5S ribosomal pseudogene 240 Neighboring gene Sharpr-MPRA regulatory region 12289 Neighboring gene cadherin like and PC-esterase domain containing 1 Neighboring gene high mobility group nucleosome binding domain 1 pseudogene 18

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

Bibliography

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Related articles in PubMed

  1. Inhibitor of growth protein 3 epigenetically silences endogenous retroviral elements and prevents innate immune activation. Song Y, et al. Nucleic Acids Res, 2021 Dec 16. PMID 34791430, Free PMC Article
  2. A Novel Splice Variant of the Inhibitor of Growth 3 Lacks the Plant Homeodomain and Regulates Epithelial-Mesenchymal Transition in Prostate Cancer Cells. Melekhova A, et al. Biomolecules, 2021 Aug 4. PMID 34439818, Free PMC Article
  3. Nuclear localization of ING3 is required to suppress melanoma cell migration, invasion and angiogenesis. Zhou R, et al. Biochem Biophys Res Commun, 2020 Jun 25. PMID 32334834
  4. Downregulation of nuclear ING3 expression and translocalization to cytoplasm promotes tumorigenesis and progression in head and neck squamous cell carcinoma (HNSCC). Li X, et al. Histol Histopathol, 2020 Jul. PMID 31886514
  5. Human ex vivo prostate tissue model system identifies ING3 as an oncoprotein. McClurg UL, et al. Br J Cancer, 2018 Mar 6. PMID 29381681, Free PMC Article

See all (66) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. ING3 inhibits the malignant progression of lung adenocarcinoma by negatively regulating ITGB4 expression to inactivate Src/FAK signaling.
    Title: ING3 inhibits the malignant progression of lung adenocarcinoma by negatively regulating ITGB4 expression to inactivate Src/FAK signaling.
  2. ING Tumour Suppressors and ING Splice Variants as Coregulators of the Androgen Receptor Signalling in Prostate Cancer.
    Title: ING Tumour Suppressors and ING Splice Variants as Coregulators of the Androgen Receptor Signalling in Prostate Cancer.
  3. Inhibitor of growth protein 3 epigenetically silences endogenous retroviral elements and prevents innate immune activation.
    Title: Inhibitor of growth protein 3 epigenetically silences endogenous retroviral elements and prevents innate immune activation.
  4. ING3 and ING4 immunoexpression and their relation to the development of benign odontogenic lesions.
    Title: ING3 and ING4 immunoexpression and their relation to the development of benign odontogenic lesions.
  5. A Novel Splice Variant of the Inhibitor of Growth 3 Lacks the Plant Homeodomain and Regulates Epithelial-Mesenchymal Transition in Prostate Cancer Cells.
    Title: A Novel Splice Variant of the Inhibitor of Growth 3 Lacks the Plant Homeodomain and Regulates Epithelial-Mesenchymal Transition in Prostate Cancer Cells.
  6. Downregulation of nuclear ING3 expression and translocalization to cytoplasm promotes tumorigenesis and progression in head and neck squamous cell carcinoma (HNSCC).
    Title: Downregulation of nuclear ING3 expression and translocalization to cytoplasm promotes tumorigenesis and progression in head and neck squamous cell carcinoma (HNSCC).
  7. Nuclear localization of ING3 is required to suppress melanoma cell migration, invasion and angiogenesis.
    Title: Nuclear localization of ING3 is required to suppress melanoma cell migration, invasion and angiogenesis.
  8. ING3 is required for ATM signaling and DNA repair in response to DNA double strand breaks.
    Title: ING3 is required for ATM signaling and DNA repair in response to DNA double strand breaks.
  9. Data show that ING3 associates with gene promoters to regulate a transcriptional network that is required for cellular proliferation. Importantly, ING3 elevated copy number and protein levels in cancer patients, particularly in treatment-resistant patients, designate ING3 as a novel marker of poor survival for cancer patients and an unsuspected oncoprotein.
    Title: Human ex vivo prostate tissue model system identifies ING3 as an oncoprotein.
  10. results reveal the molecular mechanism of H3K4me3 selection by the ING3PHD and suggest that this interaction is important for mediating ING3 tumor suppressive activities.
    Title: Mechanism of Histone H3K4me3 Recognition by the Plant Homeodomain of Inhibitor of Growth 3.
Submit: New GeneRIF Correction See all GeneRIFs (20)

Phenotypes

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

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ20089

Gene Ontology Provided by GOA

Function Evidence Code Pubs
contributes_to histone H2A acetyltransferase activity IDA
Inferred from Direct Assay
more info
 PubMed 
contributes_to histone H4 acetyltransferase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables histone H4K12 acetyltransferase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables histone H4K16 acetyltransferase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables histone H4K5 acetyltransferase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables histone H4K8 acetyltransferase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables methylated histone binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables methylated histone binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in chromatin remodeling IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of DNA-templated transcription NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in positive regulation of double-strand break repair via homologous recombination IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of apoptotic process NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in regulation of cell cycle IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of double-strand break repair NAS
Non-traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
part_of NuA4 histone acetyltransferase complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of NuA4 histone acetyltransferase complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of Swr1 complex IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
part_of nucleosome IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus NAS
Non-traceable Author Statement
more info
 PubMed 
part_of piccolo histone acetyltransferase complex IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
inhibitor of growth protein 3

NCBI Reference Sequences (RefSeq)

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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_023322.1 RefSeqGene

    Range
    5015..31454
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_019071.3 → NP_061944.2  inhibitor of growth protein 3 isoform 1

    See identical proteins and their annotated locations for NP_061944.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC004537, AF074968, AK000096, BU677936, BU684039
    Consensus CDS
    CCDS5778.1
    UniProtKB/Swiss-Prot
    A8K790, O60394, Q567P3, Q6GMT3, Q7Z762, Q969G0, Q96DT4, Q9HC99, Q9NXR8, Q9P081
    UniProtKB/TrEMBL
    Q5GRH6
    Related
    ENSP00000320566.5, ENST00000315870.10
    Conserved Domains (3) summary
    COG5034
    Location:4 → 410
    TNG2; Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
    cd15585
    Location:362 → 406
    PHD_ING3; PHD finger found in inhibitor of growth protein 3 (ING3) and similar proteins
    pfam12998
    Location:3 → 102
    ING; Inhibitor of growth proteins N-terminal histone-binding

  2. NM_198267.2 → NP_938008.1  inhibitor of growth protein 3 isoform 3

    See identical proteins and their annotated locations for NP_938008.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses a different segment in its 3' coding region and UTR, compared to variant 1, with a resulting frameshift. The predicted isoform (3) has a distinct and shorter C-terminus, as compared to isoform 1. This transcript is supported by several ESTs, but the predicted ORF has not yet been experimentally confirmed.
    Source sequence(s)
    AK000096, BC009777, CA442734
    Consensus CDS
    CCDS35497.1
    UniProtKB/TrEMBL
    A0A0C4DG38
    Related
    ENSP00000341697.5, ENST00000339121.9
    Conserved Domains (1) summary
    pfam12998
    Location:3 → 89
    ING; Inhibitor of growth proteins N-terminal histone-binding

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    120950777..120977216
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047420535.1 → XP_047276491.1  inhibitor of growth protein 3 isoform X1

    Related
    ENSP00000410406.1, ENST00000427726.5

  2. XM_017012369.3 → XP_016867858.1  inhibitor of growth protein 3 isoform X2

    UniProtKB/TrEMBL
    A0A0C4DG38, B7ZKQ7
    Related
    ENSP00000395719.1, ENST00000445699.5
    Conserved Domains (1) summary
    pfam12998
    Location:3 → 89
    ING; Inhibitor of growth proteins N-terminal histone-binding

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    122266123..122292563
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054358511.1 → XP_054214486.1  inhibitor of growth protein 3 isoform X1

  2. XM_054358512.1 → XP_054214487.1  inhibitor of growth protein 3 isoform X2

    UniProtKB/TrEMBL
    B7ZKQ7

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_198266.1: Suppressed sequence

    Description
    NM_198266.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9NXR8.2 GenPept UniProtKB/Swiss-Prot:Q9NXR8

Gene LinkOut

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

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