Format

Send to:

Choose Destination

Links from Nucleotide

    • Showing Current items.

    IGF2BP3 insulin like growth factor 2 mRNA binding protein 3 [ Homo sapiens (human) ]

    Gene ID: 10643, updated on 9-Oct-2021

    Summary

    Official Symbol
    IGF2BP3provided by HGNC
    Official Full Name
    insulin like growth factor 2 mRNA binding protein 3provided by HGNC
    Primary source
    HGNC:HGNC:28868
    See related
    Ensembl:ENSG00000136231 MIM:608259
    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
    KOC; CT98; IMP3; KOC1; IMP-3; VICKZ3
    Summary
    The protein encoded by this gene is primarily found in the nucleolus, where it can bind to the 5' UTR of the insulin-like growth factor II leader 3 mRNA and may repress translation of insulin-like growth factor II during late development. The encoded protein contains several KH domains, which are important in RNA binding and are known to be involved in RNA synthesis and metabolism. A pseudogene exists on chromosome 7, and there are putative pseudogenes on other chromosomes. [provided by RefSeq, Jul 2008]
    Annotation information
    Note: IMP3 (Gene ID: 55272) and IGF2BP3 (Gene ID: 10643) share the IMP3 symbol/alias in common. IMP3 is a widely used alternative name for insulin-like growth factor 2 mRNA-binding protein 3 (IGF2BP3), which can be confused with the official symbol for IMP3, U3 small nucleolar ribonucleoprotein (IMP3). [17 May 2018]
    Expression
    Biased expression in placenta (RPKM 12.9), testis (RPKM 2.5) and 2 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See IGF2BP3 in Genome Data Viewer
    Location:
    7p15.3
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    109.20210514 current GRCh38.p13 (GCF_000001405.39) 7 NC_000007.14 (23310209..23470674, complement)
    105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (23349828..23510110, complement)

    Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101927890 Neighboring gene glycoprotein nmb Neighboring gene mitochondrial assembly of ribosomal large subunit 1 Neighboring gene small nucleolar RNA, C/D box 65C Neighboring gene RNA, U7 small nuclear 143 pseudogene Neighboring gene chromosome 5 open reading frame 13 pseudogene Neighboring gene ribosomal protein S2 pseudogene 32

    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

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    Associated conditions

    Description Tests
    A novel common variant in DCST2 is associated with length in early life and height in adulthood.
    GeneReviews: Not available
    Genome-wide association study of the five-factor model of personality in young Korean women.
    GeneReviews: Not available
    Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture.
    GeneReviews: Not available
    Hundreds of variants clustered in genomic loci and biological pathways affect human height.
    GeneReviews: Not available
    Loci associated with N-glycosylation of human immunoglobulin G show pleiotropy with autoimmune diseases and haematological cancers.
    GeneReviews: Not available

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify insulin-like growth factor 2 mRNA binding protein 3 (IGF2BP3), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify insulin-like growth factor 2 mRNA binding protein 3 (IGF2BP3), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Nef nef Tandem affinity purification and mass spectrometry analysis identify insulin-like growth factor 2 mRNA binding protein 3 (IGF2BP3), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Pr55(Gag) gag Tandem affinity purification and mass spectrometry analysis identify insulin-like growth factor 2 mRNA binding protein 3 (IGF2BP3), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • DKFZp686F1078

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables mRNA 3'-UTR binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables mRNA 3'-UTR binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables mRNA 5'-UTR binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables translation regulator activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in anatomical structure morphogenesis TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in mRNA transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of translation ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    involved_in nervous system development IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in regulation of RNA metabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in regulation of cytokine production IC
    Inferred by Curator
    more info
    PubMed 
    involved_in regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in translation TAS
    Traceable Author Statement
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
     
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 

    General protein information

    Preferred Names
    insulin-like growth factor 2 mRNA-binding protein 3
    Names
    IGF-II mRNA-binding protein 3
    IGF2 mRNA-binding protein 3
    KH domain containing protein overexpressed in cancer
    VICKZ family member 3
    cancer/testis antigen 98

    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.

    mRNA and Protein(s)

    1. NM_006547.3NP_006538.2  insulin-like growth factor 2 mRNA-binding protein 3

      See identical proteins and their annotated locations for NP_006538.2

      Status: REVIEWED

      Source sequence(s)
      AC005082, AC021876, AC079780
      Consensus CDS
      CCDS5382.1
      UniProtKB/Swiss-Prot
      O00425
      Related
      ENSP00000258729.3, ENST00000258729.8
      Conserved Domains (5) summary
      cd00105
      Location:279344
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:407470
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
      cd12627
      Location:177
      RRM1_IGF2BP3; RNA recognition motif 1 in vertebrate insulin-like growth factor 2 mRNA-binding protein 3 (IGF2BP3)
      cd12630
      Location:81156
      RRM2_IGF2BP3; RNA recognition motif 2 in vertebrate insulin-like growth factor 2 mRNA-binding protein 3 (IGF2BP3)
      pfam00013
      Location:492555
      KH_1; KH domain

    RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

    Reference GRCh38.p13 Primary Assembly

    Genomic

    1. NC_000007.14 Reference GRCh38.p13 Primary Assembly

      Range
      23310209..23470674 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011515089.2XP_011513391.1  insulin-like growth factor 2 mRNA-binding protein 3 isoform X1

      Conserved Domains (5) summary
      COG0724
      Location:287
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd00105
      Location:284349
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:412475
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
      cd12627
      Location:177
      RRM1_IGF2BP3; RNA recognition motif 1 in vertebrate insulin-like growth factor 2 mRNA-binding protein 3 (IGF2BP3)
      cd12630
      Location:81161
      RRM2_IGF2BP3; RNA recognition motif 2 in vertebrate insulin-like growth factor 2 mRNA-binding protein 3 (IGF2BP3)
    2. XM_011515091.2XP_011513393.1  insulin-like growth factor 2 mRNA-binding protein 3 isoform X3

      See identical proteins and their annotated locations for XP_011513393.1

      Conserved Domains (2) summary
      cd00105
      Location:122187
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:250313
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    3. XM_011515092.2XP_011513394.1  insulin-like growth factor 2 mRNA-binding protein 3 isoform X4

      See identical proteins and their annotated locations for XP_011513394.1

      Conserved Domains (3) summary
      cd00105
      Location:186251
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:314377
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
      cl17169
      Location:363
      RRM_SF; RNA recognition motif (RRM) superfamily
    4. XM_011515090.3XP_011513392.1  insulin-like growth factor 2 mRNA-binding protein 3 isoform X2

      Conserved Domains (3) summary
      cd00105
      Location:171236
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:299362
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
      cl17169
      Location:2648
      RRM_SF; RNA recognition motif (RRM) superfamily
    5. XM_006715639.2XP_006715702.1  insulin-like growth factor 2 mRNA-binding protein 3 isoform X3

      See identical proteins and their annotated locations for XP_006715702.1

      Conserved Domains (2) summary
      cd00105
      Location:122187
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:250313
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    6. XM_011515093.2XP_011513395.1  insulin-like growth factor 2 mRNA-binding protein 3 isoform X4

      See identical proteins and their annotated locations for XP_011513395.1

      Conserved Domains (3) summary
      cd00105
      Location:186251
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      cd02396
      Location:314377
      PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
      cl17169
      Location:363
      RRM_SF; RNA recognition motif (RRM) superfamily
    Support Center