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    ID4 inhibitor of DNA binding 4 [ Homo sapiens (human) ]

    Gene ID: 3400, updated on 14-Nov-2024

    Summary

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    Official Symbol
    ID4provided by HGNC
    Official Full Name
    inhibitor of DNA binding 4provided by HGNC
    Primary source
    HGNC:HGNC:5363
    See related
    Ensembl:ENSG00000172201 MIM:600581; AllianceGenome:HGNC:5363
    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
    IDB4; bHLHb27
    Summary
    This gene encodes a member of the inhibitor of DNA binding (ID) protein family. The encoded protein lacks DNA binding ability, and instead regulates gene expression through binding to and inhibiting basic helix-loop-helix transcription factors. This protein has been implicated in the regulation of diverse cellular processes that play a role in development and tumorigenesis. [provided by RefSeq, Aug 2017]
    Expression
    Biased expression in thyroid (RPKM 167.8), brain (RPKM 37.5) and 12 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See ID4 in Genome Data Viewer
    Location:
    6p22.3
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (19837370..19842197)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (19709014..19713841)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (19837601..19842428)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene MED14-independent group 3 enhancer GRCh37_chr6:19730720-19731919 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:19734675-19735175 Neighboring gene lncRNA bladder and prostate cancer suppressor, hnRNPK interacting Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr6:19749583-19750782 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:19764761-19765373 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:19765374-19765985 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16976 Neighboring gene uncharacterized LOC105374963 Neighboring gene NANOG hESC enhancer GRCh37_chr6:19811543-19812108 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:19940204-19940832 Neighboring gene VISTA enhancer hs1175 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:20028521-20029021 Neighboring gene ribosomal protein L29 pseudogene 17 Neighboring gene uncharacterized LOC105374965

    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 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. [ID4 promoter methylation in acute myeloid leukemia]. Xu RR, et al. Zhongguo Shi Yan Xue Ye Xue Za Zhi, 2011 Jun. PMID 21729527
    2. [Methylation of Id4 gene promoter in 4 malignant hematopoietic cell lines]. Zhao Y, et al. Zhongguo Shi Yan Xue Ye Xue Za Zhi, 2008 Dec. PMID 19099656
    3. Epigenetic dysregulation of ID4 predicts disease progression and treatment outcome in myeloid malignancies. Zhou JD, et al. J Cell Mol Med, 2017 Aug. PMID 28452111, Free PMC Article
    4. [Preliminary study on difference of Id4 gene methylation in various types of myelodysplastic syndromes]. Zhao Y, et al. Zhongguo Shi Yan Xue Ye Xue Za Zhi, 2009 Jun. PMID 19549375
    5. ID4 methylation predicts high risk of leukemic transformation in patients with myelodysplastic syndrome. Wang H, et al. Leuk Res, 2010 May. PMID 19853913

    See all (113) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. ELK3-ID4 axis governs the metastatic features of triple negative breast cancer.
      Title: ELK3-ID4 axis governs the metastatic features of triple negative breast cancer.
    2. Osteoglycin (OGN) promotes tumorigenesis of pancreatic cancer cell via targeting ID4.
      Title: Osteoglycin (OGN) promotes tumorigenesis of pancreatic cancer cell via targeting ID4.
    3. Upregulated circTMEM59 Inhibits Cell Growth and Metastasis by miR-668-3p/ID4 Axis in Colorectal Cancer.
      Title: Upregulated circTMEM59 Inhibits Cell Growth and Metastasis by miR-668-3p/ID4 Axis in Colorectal Cancer.
    4. CDC42 as an epigenetic regulator of ID4 in triple-negative breast tumors.
      Title: CDC42 as an epigenetic regulator of ID4 in triple-negative breast tumors.
    5. miR-9-5p Promotes Lung Adenocarcinoma Cell Proliferation, Migration and Invasion by Targeting ID4.
      Title: miR-9-5p Promotes Lung Adenocarcinoma Cell Proliferation, Migration and Invasion by Targeting ID4.
    6. ID4 predicts poor prognosis and promotes BDNF-mediated oncogenesis of colorectal cancer.
      Title: ID4 predicts poor prognosis and promotes BDNF-mediated oncogenesis of colorectal cancer.
    7. UVB induces cutaneous squamous cell carcinoma progression by de novo ID4 methylation via methylation regulating enzymes.
      Title: UVB induces cutaneous squamous cell carcinoma progression by de novo ID4 methylation via methylation regulating enzymes.
    8. Paracrine Signaling from Breast Cancer Cells Causes Activation of ID4 Expression in Tumor-Associated Macrophages.
      Title: Paracrine Signaling from Breast Cancer Cells Causes Activation of ID4 Expression in Tumor-Associated Macrophages.
    9. Proteogenomic analysis of Inhibitor of Differentiation 4 (ID4) in basal-like breast cancer.
      Title: Proteogenomic analysis of Inhibitor of Differentiation 4 (ID4) in basal-like breast cancer.
    10. miR-335/ID4 dysregulation facilitated leukemogenesis through the activation of the PI3K/Akt signaling pathway.
      Title: MicroRNA-335/ID4 dysregulation predicts clinical outcome and facilitates leukemogenesis by activating PI3K/Akt signaling pathway in acute myeloid leukemia.
    Submit: New GeneRIF Correction See all GeneRIFs (83)

    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

    EBI GWAS Catalog

    Description
    Genome-wide association of lipid-lowering response to statins in combined study populations.
    EBI GWAS Catalog
    Genome-wide association study link novel loci to endometriosis.
    EBI GWAS Catalog
    Hundreds of variants clustered in genomic loci and biological pathways affect human height.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    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

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA polymerase II-specific DNA-binding transcription factor binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein dimerization activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription corepressor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables transcription regulator inhibitor activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in G1/S transition of mitotic cell cycle IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in astrocyte differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in central nervous system myelination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cerebral cortex neuron differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in circadian rhythm IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in fat cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in hippocampus development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in negative regulation of astrocyte differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of fat cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of neuron differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of oligodendrocyte differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in neuroblast proliferation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in neuron differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in osteoblast differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of neuroblast proliferation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in prostate gland epithelium morphogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in prostate gland stromal morphogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein localization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in seminal vesicle morphogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IC
    Inferred by Curator
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    DNA-binding protein inhibitor ID-4
    Names
    class B basic helix-loop-helix protein 27
    inhibitor of DNA binding 4, HLH protein
    inhibitor of DNA binding 4, dominant negative helix-loop-helix protein
    inhibitor of differentiation 4

    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.

    mRNA and Protein(s)

    1. NM_001546.4 → NP_001537.1  DNA-binding protein inhibitor ID-4

      See identical proteins and their annotated locations for NP_001537.1

      Status: REVIEWED

      Source sequence(s)
      AI692586, AL022726, BC014941, DB461864
      Consensus CDS
      CCDS4544.1
      UniProtKB/Swiss-Prot
      P47928, Q13005
      Related
      ENSP00000367972.3, ENST00000378700.8
      Conserved Domains (1) summary
      cd19694
      Location:62 → 117
      bHLH_dnHLH_ID4; basic helix-loop-helix (bHLH) domain found in DNA-binding protein inhibitor ID4 and similar proteins

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      19837370..19842197
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      19709014..19713841
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P47928.1 GenPept UniProtKB/Swiss-Prot:P47928

    Gene LinkOut

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

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