Free for academic non-profit institutions. Other users need a Commercial license

Aliases for IGF2BP3 Gene

Aliases for IGF2BP3 Gene

  • Insulin Like Growth Factor 2 MRNA Binding Protein 3 2 3 5
  • IGF-II MRNA-Binding Protein 3 3 4
  • IGF2 MRNA-Binding Protein 3 3 4
  • Cancer/Testis Antigen 98 2 3
  • VICKZ Family Member 3 3 4
  • VICKZ3 3 4
  • IMP-3 3 4
  • IMP3 3 4
  • KOC1 3 4
  • KH Domain Containing Protein Overexpressed In Cancer 3
  • KH Domain-Containing Protein Overexpressed In Cancer 4
  • Insulin-Like Growth Factor 2 MRNA-Binding Protein 3 3
  • Insulin-Like Growth Factor 2 MRNA Binding Protein 3 2
  • IGF II MRNA Binding Protein 3 2
  • CT98 3
  • HKOC 4
  • KOC 3

External Ids for IGF2BP3 Gene

Summaries for IGF2BP3 Gene

Entrez Gene Summary for IGF2BP3 Gene

  • 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]

GeneCards Summary for IGF2BP3 Gene

IGF2BP3 (Insulin Like Growth Factor 2 MRNA Binding Protein 3) is a Protein Coding gene. Diseases associated with IGF2BP3 include Enchondroma. Among its related pathways are Insulin-like Growth Factor-2 mRNA Binding Proteins (IGF2BPs/IMPs/VICKZs) bind RNA and Gene Expression. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and RNA binding. An important paralog of this gene is IGF2BP1.

UniProtKB/Swiss-Prot for IGF2BP3 Gene

  • RNA-binding factor that may recruit target transcripts to cytoplasmic protein-RNA complexes (mRNPs). This transcript caging into mRNPs allows mRNA transport and transient storage. It also modulates the rate and location at which target transcripts encounter the translational apparatus and shields them from endonuclease attacks or microRNA-mediated degradation. Binds to the 3-UTR of CD44 mRNA and stabilizes it, hence promotes cell adhesion and invadopodia formation in cancer cells. Binds to beta-actin/ACTB and MYC transcripts. Binds to the 5-UTR of the insulin-like growth factor 2 (IGF2) mRNAs.

Gene Wiki entry for IGF2BP3 Gene

Additional gene information for IGF2BP3 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for IGF2BP3 Gene

Genomics for IGF2BP3 Gene

GeneHancer (GH) Regulatory Elements for IGF2BP3 Gene

Promoters and enhancers for IGF2BP3 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH07J023462 Promoter/Enhancer 2.9 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 657.8 +1.2 1158 13.3 MLX FEZF1 DMAP1 IRF4 ZNF213 E2F8 ZNF263 SP3 NFYC MEF2D IGF2BP3 TRA2A ENSG00000227930 CCDC126 NUPL2 EEF1A1P6 CLK2P1 STK31 KLHL7-DT MALSU1
GH07J023345 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 662 +121.8 121837 6.3 HDGF ARNT SIN3A TCF12 ZNF766 ATF7 FOS RUNX3 SMARCA4 ZNF184 IGF2BP3 KLHL7-DT SNORD65C RNU7-143P ENSG00000179428 ENSG00000232627 MALSU1 GC07M023312
GH07J023246 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE 10.3 +223.1 223084 2.6 USF1 ZMYM3 ZNF507 ZNF316 POLR2A EED SCRT2 RCOR1 FOSL2 FOS GPNMB KLHL7-DT IGF2BP3 LOC389473 KLHL7 ENSG00000226816 MALSU1
GH07J023356 Enhancer 1.3 Ensembl ENCODE dbSUPER 11.4 +112.7 112736 3.5 PKNOX1 FOXA2 ARID4B ZNF143 ZFP91 FOS RUNX3 REST KAT8 NFIL3 KLHL7-DT RNU7-143P IGF2BP3 LOC389473 ENSG00000232627 MALSU1 GC07M023312
GH07J023372 Enhancer 1 Ensembl ENCODE 13.4 +96.9 96943 2.1 PKNOX1 SMAD1 MZF1 STAT5A BATF ZNF366 ZSCAN5C ATF7 ETV6 IKZF2 SNORD65C IGF2BP3 LOC389473 KLHL7-DT ENSG00000232627 GC07P023398 GC07M023312
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around IGF2BP3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the IGF2BP3 gene promoter:
  • MRF-2
  • Egr-2
  • FOXD3
  • S8
  • Lmo2
  • RSRFC4
  • HOXA5
  • RORalpha2
  • AML1a

Genomic Locations for IGF2BP3 Gene

Genomic Locations for IGF2BP3 Gene
chr7:23,310,209-23,470,527
(GRCh38/hg38)
Size:
160,319 bases
Orientation:
Minus strand
chr7:23,349,828-23,510,086
(GRCh37/hg19)
Size:
160,259 bases
Orientation:
Minus strand

Genomic View for IGF2BP3 Gene

Genes around IGF2BP3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
IGF2BP3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for IGF2BP3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for IGF2BP3 Gene

Proteins for IGF2BP3 Gene

  • Protein details for IGF2BP3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O00425-IF2B3_HUMAN
    Recommended name:
    Insulin-like growth factor 2 mRNA-binding protein 3
    Protein Accession:
    O00425
    Secondary Accessions:
    • A0A4Z5
    • Q63HM0
    • Q6MZZ2
    • Q86VB1

    Protein attributes for IGF2BP3 Gene

    Size:
    579 amino acids
    Molecular mass:
    63705 Da
    Quaternary structure:
    • Can form homooligomers and heterooligomers with IGF2BP1 and IGF2BP3 in an RNA-dependent manner. Interacts with IGF2BP1. Interacts with ELAVL1, DHX9 and HNRNPU.
    Miscellaneous:
    • Autoantibodies against IGF2BP3 are detected in sera from some patients with a variety of carcinomas.

    Three dimensional structures from OCA and Proteopedia for IGF2BP3 Gene

    Alternative splice isoforms for IGF2BP3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for IGF2BP3 Gene

Post-translational modifications for IGF2BP3 Gene

  • Ubiquitination at Lys508, isoforms=2450, isoforms=2440, Lys280, Lys272, Lys213, and Lys138
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for IGF2BP3 Gene

Domains & Families for IGF2BP3 Gene

Gene Families for IGF2BP3 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for IGF2BP3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O00425

UniProtKB/Swiss-Prot:

IF2B3_HUMAN :
  • All KH domains contribute binding to target mRNA. They are also required for RNA-dependent homo- and heterooligomerization. The integrity of KH domains seems not to be required for localization to stress granules.
  • Belongs to the RRM IMP/VICKZ family.
Domain:
  • All KH domains contribute binding to target mRNA. They are also required for RNA-dependent homo- and heterooligomerization. The integrity of KH domains seems not to be required for localization to stress granules.
Family:
  • Belongs to the RRM IMP/VICKZ family.
genes like me logo Genes that share domains with IGF2BP3: view

Function for IGF2BP3 Gene

Molecular function for IGF2BP3 Gene

UniProtKB/Swiss-Prot Function:
RNA-binding factor that may recruit target transcripts to cytoplasmic protein-RNA complexes (mRNPs). This transcript caging into mRNPs allows mRNA transport and transient storage. It also modulates the rate and location at which target transcripts encounter the translational apparatus and shields them from endonuclease attacks or microRNA-mediated degradation. Binds to the 3-UTR of CD44 mRNA and stabilizes it, hence promotes cell adhesion and invadopodia formation in cancer cells. Binds to beta-actin/ACTB and MYC transcripts. Binds to the 5-UTR of the insulin-like growth factor 2 (IGF2) mRNAs.

Phenotypes From GWAS Catalog for IGF2BP3 Gene

Gene Ontology (GO) - Molecular Function for IGF2BP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding HDA,TAS 22658674
GO:0003730 mRNA 3-UTR binding IDA 20080952
GO:0005515 protein binding IPI 17289661
GO:0045182 translation regulator activity ISS 9891060
GO:0048027 mRNA 5-UTR binding IDA 9891060
genes like me logo Genes that share ontologies with IGF2BP3: view
genes like me logo Genes that share phenotypes with IGF2BP3: view

Animal Model Products

CRISPR Products

miRNA for IGF2BP3 Gene

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for IGF2BP3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for IGF2BP3 Gene

Localization for IGF2BP3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for IGF2BP3 Gene

Nucleus. Cytoplasm. Note=Found in lamellipodia of the leading edge, in the perinuclear region, and beneath the plasma membrane. The subcytoplasmic localization is cell specific and regulated by cell contact and growth. Localized at the connecting piece and the tail of the spermatozoa. Colocalized with CD44 mRNA in RNP granules. In response to cellular stress, such as oxidative stress, recruited to stress granules.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for IGF2BP3 gene
Compartment Confidence
nucleus 5
cytosol 5
plasma membrane 2
extracellular 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for IGF2BP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm TAS,IDA 9891060
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with IGF2BP3: view

Pathways & Interactions for IGF2BP3 Gene

genes like me logo Genes that share pathways with IGF2BP3: view

Pathways by source for IGF2BP3 Gene

1 Cell Signaling Technology pathway for IGF2BP3 Gene

Gene Ontology (GO) - Biological Process for IGF2BP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006412 translation TAS 9891060
GO:0006417 regulation of translation IEA --
GO:0009653 anatomical structure morphogenesis TAS 9891060
GO:0017148 negative regulation of translation ISS 9891060
GO:0042035 regulation of cytokine biosynthetic process IC 9891060
genes like me logo Genes that share ontologies with IGF2BP3: view

No data available for SIGNOR curated interactions for IGF2BP3 Gene

Drugs & Compounds for IGF2BP3 Gene

(1) Drugs for IGF2BP3 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with IGF2BP3: view

Transcripts for IGF2BP3 Gene

Unigene Clusters for IGF2BP3 Gene

Insulin-like growth factor 2 mRNA binding protein 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for IGF2BP3

Alternative Splicing Database (ASD) splice patterns (SP) for IGF2BP3 Gene

No ASD Table

Relevant External Links for IGF2BP3 Gene

GeneLoc Exon Structure for
IGF2BP3
ECgene alternative splicing isoforms for
IGF2BP3

Expression for IGF2BP3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for IGF2BP3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for IGF2BP3 Gene

This gene is overexpressed in Testis (x4.1).

Protein differential expression in normal tissues from HIPED for IGF2BP3 Gene

This gene is overexpressed in Lung (31.9) and Liver (20.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for IGF2BP3 Gene



NURSA nuclear receptor signaling pathways regulating expression of IGF2BP3 Gene:

IGF2BP3

SOURCE GeneReport for Unigene cluster for IGF2BP3 Gene:

Hs.700696

mRNA Expression by UniProt/SwissProt for IGF2BP3 Gene:

O00425-IF2B3_HUMAN
Tissue specificity: Expressed in fetal liver, fetal lung, fetal kidney, fetal thymus, fetal placenta, fetal follicles of ovary and gonocytes of testis, growing oocytes, spermatogonia and semen (at protein level). Expressed in cervix adenocarcinoma, in testicular, pancreatic and renal-cell carcinomas (at protein level). Expressed ubiquitously during fetal development at 8 and 14 weeks of gestation. Expressed in ovary, testis, brain, placenta, pancreatic cancer tissues and pancreatic cancer cell lines.

Evidence on tissue expression from TISSUES for IGF2BP3 Gene

  • Pancreas(4.3)
  • Eye(4.1)
  • Liver(2)
genes like me logo Genes that share expression patterns with IGF2BP3: view

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for IGF2BP3 Gene

Orthologs for IGF2BP3 Gene

This gene was present in the common ancestor of animals.

Orthologs for IGF2BP3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia IGF2BP3 34 33
  • 99.88 (n)
OneToOne
dog
(Canis familiaris)
Mammalia IGF2BP3 34 33
  • 94.13 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Igf2bp3 16 34 33
  • 91.82 (n)
rat
(Rattus norvegicus)
Mammalia Igf2bp3 33
  • 91.65 (n)
cow
(Bos Taurus)
Mammalia IGF2BP3 34 33
  • 91.36 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia IGF2BP3 34
  • 85 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia IGF2BP3 34
  • 70 (a)
OneToOne
chicken
(Gallus gallus)
Aves IGF2BP3 34 33
  • 81.87 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia IGF2BP3 34
  • 84 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia igf2bp3 33
  • 78.7 (n)
African clawed frog
(Xenopus laevis)
Amphibia MGC68429 33
zebrafish
(Danio rerio)
Actinopterygii igf2bp3 34 33
  • 70.31 (n)
OneToOne
dvr1rbp 33
fruit fly
(Drosophila melanogaster)
Insecta Imp 34
  • 31 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea zbp-1 34
  • 15 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 40 (a)
OneToMany
Species where no ortholog for IGF2BP3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for IGF2BP3 Gene

ENSEMBL:
Gene Tree for IGF2BP3 (if available)
TreeFam:
Gene Tree for IGF2BP3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for IGF2BP3: view image

Paralogs for IGF2BP3 Gene

Paralogs for IGF2BP3 Gene

(4) SIMAP similar genes for IGF2BP3 Gene using alignment to 2 proteins:

  • IF2B3_HUMAN
  • F8WD15_HUMAN

Pseudogenes.org Pseudogenes for IGF2BP3 Gene

genes like me logo Genes that share paralogs with IGF2BP3: view

Variants for IGF2BP3 Gene

Sequence variations from dbSNP and Humsavar for IGF2BP3 Gene

SNP ID Clin Chr 07 pos Variation AA Info Type
rs1000007268 -- 23,388,557(-) G/A intron_variant
rs1000010726 -- 23,445,745(-) A/T genic_upstream_transcript_variant, intron_variant
rs1000030100 -- 23,333,419(-) C/T intron_variant
rs1000035542 -- 23,314,729(-) T/C intron_variant
rs1000037459 -- 23,425,637(-) T/A intron_variant

Structural Variations from Database of Genomic Variants (DGV) for IGF2BP3 Gene

Variant ID Type Subtype PubMed ID
esv26021 CNV loss 19812545
esv2663653 CNV deletion 23128226
esv2667690 CNV deletion 23128226
esv3612542 CNV loss 21293372
esv3612543 CNV loss 21293372
esv3891087 CNV loss 25118596
nsv1016316 CNV gain 25217958
nsv1117699 CNV deletion 24896259
nsv1148979 CNV insertion 26484159
nsv366543 CNV deletion 16902084
nsv464408 CNV loss 19166990
nsv472841 CNV novel sequence insertion 20440878
nsv606410 CNV loss 21841781
nsv7393 OTHER inversion 18451855
nsv970804 CNV duplication 23825009
nsv970805 CNV duplication 23825009

Variation tolerance for IGF2BP3 Gene

Residual Variation Intolerance Score: 13.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.77; 16.23% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for IGF2BP3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
IGF2BP3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for IGF2BP3 Gene

Disorders for IGF2BP3 Gene

MalaCards: The human disease database

(1) MalaCards diseases for IGF2BP3 Gene - From: GeneCards

Disorder Aliases PubMed IDs
enchondroma
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for IGF2BP3

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with IGF2BP3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for IGF2BP3 Gene

Publications for IGF2BP3 Gene

  1. A family of insulin-like growth factor II mRNA-binding proteins represses translation in late development. (PMID: 9891060) Nielsen J … Nielsen FC (Molecular and cellular biology 1999) 2 3 4 58
  2. Cloning of a gene highly overexpressed in cancer coding for a novel KH-domain containing protein. (PMID: 9178771) Müeller-Pillasch F … Gress TM (Oncogene 1997) 2 3 4 58
  3. ZBP1 recognition of beta-actin zipcode induces RNA looping. (PMID: 20080952) Chao JA … Singer RH (Genes & development 2010) 3 4 58
  4. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58
  5. IGF2BP1, IGF2BP2 and IGF2BP3 genotype, haplotype and genetic model studies in metabolic syndrome traits and diabetes. (PMID: 20627640) Rodriguez S … Day IN (Growth hormone & IGF research : official journal of the Growth Hormone Research Society and the International IGF Research Society 2010) 3 44 58

Products for IGF2BP3 Gene

Sources for IGF2BP3 Gene

Content
Loading form....