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Aliases for IMP3 Gene

Aliases for IMP3 Gene

  • IMP3, U3 Small Nucleolar Ribonucleoprotein 2 3 5
  • U3 SnoRNP Protein IMP3 3 4
  • C15orf12 3 4
  • MRPS4 3 4
  • BRMS2 3 4
  • IMP3, U3 Small Nucleolar Ribonucleoprotein, Homolog (Yeast) 2
  • IMP3, U3 Small Nucleolar Ribonucleoprotein, Homolog 3
  • U3 Small Nucleolar Ribonucleoprotein Protein IMP3 3
  • Chromosome 15 Open Reading Frame 12 2
  • Mitochondrial Ribosomal Protein S4 2
  • U3 SnoRNP Protein 3 Homolog 3

External Ids for IMP3 Gene

Previous HGNC Symbols for IMP3 Gene

  • MRPS4
  • C15orf12

Previous GeneCards Identifiers for IMP3 Gene

  • GC15M073719
  • GC15M075931
  • GC15M052687

Summaries for IMP3 Gene

Entrez Gene Summary for IMP3 Gene

  • This gene encodes the human homolog of the yeast Imp3 protein. The protein localizes to the nucleoli and interacts with the U3 snoRNP complex. The protein contains an S4 domain. [provided by RefSeq, Jul 2008]

GeneCards Summary for IMP3 Gene

IMP3 (IMP3, U3 Small Nucleolar Ribonucleoprotein) is a Protein Coding gene. Among its related pathways are rRNA processing in the nucleus and cytosol and MAPK-Erk Pathway. Gene Ontology (GO) annotations related to this gene include structural constituent of ribosome.

UniProtKB/Swiss-Prot for IMP3 Gene

  • Component of the 60-80S U3 small nucleolar ribonucleoprotein (U3 snoRNP). Required for the early cleavages during pre-18S ribosomal RNA processing.

Gene Wiki entry for IMP3 Gene

Additional gene information for IMP3 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for IMP3 Gene

Genomics for IMP3 Gene

GeneHancer (GH) Regulatory Elements for IMP3 Gene

Promoters and enhancers for IMP3 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH15J075646 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 650.7 -0.9 -865 7.1 HDGF PKNOX1 FOXA2 MLX ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 SNX33 GC15P075650 IMP3 SNUPN SIN3A MIR631 MAN2C1 ENSG00000260892
GH15J075604 Enhancer 0.9 Ensembl ENCODE 11.6 +42.0 41961 4 TEAD4 TAL1 ZKSCAN1 TCF12 ZNF316 NCOR1 VEZF1 CBFA2T2 PRDM10 MAFK MAN2C1 DNM1P35 SNUPN ENSG00000203392 FBXO22 PTPN9 CSPG4 SNX33 IMP3 MIR631
GH15J075775 Enhancer 0.8 ENCODE 12.1 -127.6 -127612 0.7 ATF1 INSM2 KLF17 RARA ETS1 ZEB1 GLIS2 ZNF366 FOS ATF7 LOC441728 ENSG00000261043 CSPG4 ENSG00000203392 SNX33 IMP3 DNM1P35 GC15P075786
GH15J075619 Enhancer 0.7 Ensembl ENCODE 11.6 +27.3 27329 3.2 SCRT1 ZNF121 JUND JUN SCRT2 ZBTB17 MAN2C1 SNUPN ENSG00000260274 PTPN9 IMP3 SNX33 ENSG00000203392 CSPG4 MIR631 ENSG00000260235
GH15J075776 Enhancer 0.6 ENCODE 12.1 -126.8 -126769 0.2 SCRT1 PKNOX1 LEF1 SP3 RFX1 NRF1 NFYC SP2 CTBP1 POLR2A LOC441728 CSPG4 ENSG00000203392 IMP3 SNX33 ENSG00000261043 GC15P075786
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around IMP3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the IMP3 gene promoter:
  • p53
  • SRF (504 AA)
  • SRF
  • En-1
  • FOXO3a
  • FOXO3b
  • FOXO3
  • STAT5A
  • Tal-1beta

Genomic Locations for IMP3 Gene

Genomic Locations for IMP3 Gene
9,622 bases
Minus strand
9,622 bases
Minus strand

Genomic View for IMP3 Gene

Genes around IMP3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
IMP3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for IMP3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for IMP3 Gene

Proteins for IMP3 Gene

  • Protein details for IMP3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    U3 small nucleolar ribonucleoprotein protein IMP3
    Protein Accession:
    Secondary Accessions:
    • B3KQ67
    • Q53G10

    Protein attributes for IMP3 Gene

    184 amino acids
    Molecular mass:
    21850 Da
    Quaternary structure:
    • Component of a heterotrimeric complex containing IMP3, IMP4 and MPHOSPH10. Interacts with MPHOSPH10.

    Three dimensional structures from OCA and Proteopedia for IMP3 Gene

neXtProt entry for IMP3 Gene

Post-translational modifications for IMP3 Gene

  • Ubiquitination at isoforms=82
  • Modification sites at PhosphoSitePlus

Other Protein References for IMP3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for IMP3 Gene

Domains & Families for IMP3 Gene

Gene Families for IMP3 Gene

Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins
  • Ribosomal proteins

Protein Domains for IMP3 Gene

Suggested Antigen Peptide Sequences for IMP3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the universal ribosomal protein uS4 family.
  • Belongs to the universal ribosomal protein uS4 family.
genes like me logo Genes that share domains with IMP3: view

Function for IMP3 Gene

Molecular function for IMP3 Gene

UniProtKB/Swiss-Prot Function:
Component of the 60-80S U3 small nucleolar ribonucleoprotein (U3 snoRNP). Required for the early cleavages during pre-18S ribosomal RNA processing.

Phenotypes From GWAS Catalog for IMP3 Gene

Gene Ontology (GO) - Molecular Function for IMP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding HDA 22658674
GO:0003735 NOT structural constituent of ribosome IBA --
GO:0005515 protein binding IPI 12655004
GO:0019843 NOT rRNA binding IBA,IEA --
GO:0030515 snoRNA binding IBA --
genes like me logo Genes that share ontologies with IMP3: view
genes like me logo Genes that share phenotypes with IMP3: view

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for IMP3 Gene

Localization for IMP3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for IMP3 Gene

Nucleus, nucleolus.

Subcellular locations from

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 IMP3 gene
Compartment Confidence
nucleus 5
cytosol 2
extracellular 1
mitochondrion 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoli (4)
  • Nucleus (4)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for IMP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
GO:0005634 nucleus IDA --
GO:0005654 nucleoplasm TAS --
GO:0005730 nucleolus IEA,IDA 12655004
GO:0015935 NOT small ribosomal subunit IBA --
genes like me logo Genes that share ontologies with IMP3: view

Pathways & Interactions for IMP3 Gene

genes like me logo Genes that share pathways with IMP3: view

Gene Ontology (GO) - Biological Process for IMP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006364 rRNA processing IBA,TAS --
GO:0042254 ribosome biogenesis IEA --
GO:0045903 NOT positive regulation of translational fidelity IBA --
genes like me logo Genes that share ontologies with IMP3: view

No data available for SIGNOR curated interactions for IMP3 Gene

Drugs & Compounds for IMP3 Gene

No Compound Related Data Available

Transcripts for IMP3 Gene

mRNA/cDNA for IMP3 Gene

(1) REFSEQ mRNAs :
(8) Additional mRNA sequences :
(387) Selected AceView cDNA sequences:
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for IMP3 Gene

IMP3, U3 small nucleolar ribonucleoprotein, homolog (yeast):
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for IMP3 Gene

No ASD Table

Relevant External Links for IMP3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for IMP3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for IMP3 Gene

Protein differential expression in normal tissues from HIPED for IMP3 Gene

This gene is overexpressed in Monocytes (16.8), Tlymphocyte (12.9), Peripheral blood mononuclear cells (7.0), and Bone (6.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for IMP3 Gene

Protein tissue co-expression partners for IMP3 Gene

NURSA nuclear receptor signaling pathways regulating expression of IMP3 Gene:


SOURCE GeneReport for Unigene cluster for IMP3 Gene:


Evidence on tissue expression from TISSUES for IMP3 Gene

  • Eye(4.2)
  • Nervous system(3.8)
  • Liver(3.1)
  • Lung(2.4)
genes like me logo Genes that share expression patterns with IMP3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for IMP3 Gene

Orthologs for IMP3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for IMP3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia IMP3 34 33
  • 99.64 (n)
(Canis familiaris)
Mammalia IMP3 34 33
  • 91.67 (n)
(Bos Taurus)
Mammalia IMP3 34 33
  • 90.4 (n)
(Mus musculus)
Mammalia Imp3 16 34 33
  • 89.86 (n)
(Rattus norvegicus)
Mammalia Imp3 33
  • 88.59 (n)
(Monodelphis domestica)
Mammalia IMP3 34
  • 85 (a)
(Anolis carolinensis)
Reptilia IMP3 34
  • 73 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia imp3 33
  • 64.83 (n)
Str.17594 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.10835 33
(Danio rerio)
Actinopterygii imp3 34 33
  • 60.98 (n)
zgc56526 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP006372 33
  • 62.25 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG4866 34 33
  • 58.38 (n)
(Caenorhabditis elegans)
Secernentea C48B6.2 34 33
  • 52.49 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ADL131C 33
  • 61.3 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0E15995g 33
  • 52.78 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes IMP3 36 34 33
  • 52.67 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G15750 33
  • 54.03 (n)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.5075 33
(Glycine max)
eudicotyledons Gma.3731 33
(Oryza sativa)
Liliopsida Os04g0662100 33
  • 62.96 (n)
Os.15267 33
(Triticum aestivum)
Liliopsida Ta.13412 33
(Zea mays)
Liliopsida Zm.3908 33
sea squirt
(Ciona savignyi)
Ascidiacea CSA.54 34
  • 63 (a)
bread mold
(Neurospora crassa)
Ascomycetes NCU01008 33
  • 56.35 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes imp3 33
  • 51.38 (n)
Species where no ortholog for IMP3 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for IMP3 Gene

Gene Tree for IMP3 (if available)
Gene Tree for IMP3 (if available)
Evolutionary constrained regions (ECRs) for IMP3: view image

Paralogs for IMP3 Gene Pseudogenes for IMP3 Gene

genes like me logo Genes that share paralogs with IMP3: view

No data available for Paralogs for IMP3 Gene

Variants for IMP3 Gene

Sequence variations from dbSNP and Humsavar for IMP3 Gene

SNP ID Clin Chr 15 pos Variation AA Info Type
rs1000768870 -- 75,640,648(-) T/C upstream_transcript_variant
rs1000820280 -- 75,640,418(-) C/T upstream_transcript_variant
rs1002401725 -- 75,641,284(-) C/T upstream_transcript_variant
rs1005525448 -- 75,641,097(-) C/T upstream_transcript_variant
rs1005787054 -- 75,640,743(-) T/C upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for IMP3 Gene

Variant ID Type Subtype PubMed ID
esv2749894 CNV deletion 23290073
esv2749895 CNV deletion 23290073
nsv1116463 OTHER inversion 24896259
nsv527186 CNV loss 19592680

Variation tolerance for IMP3 Gene

Residual Variation Intolerance Score: 55.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.31; 26.09% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for IMP3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for IMP3 Gene

Disorders for IMP3 Gene

Additional Disease Information for IMP3

No disorders were found for IMP3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for IMP3 Gene

Publications for IMP3 Gene

  1. The human Imp3 and Imp4 proteins form a ternary complex with hMpp10, which only interacts with the U3 snoRNA in 60-80S ribonucleoprotein complexes. (PMID: 12655004) Granneman S … Pruijn GJ (Nucleic acids research 2003) 2 3 4 22 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  4. Toward a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PMID: 11230166) Wiemann S … Poustka A (Genome research 2001) 3 4 58
  5. The human mitochondrial ribosomal protein genes: mapping of 54 genes to the chromosomes and implications for human disorders. (PMID: 11543634) Kenmochi N … Tanaka T (Genomics 2001) 2 3 58

Products for IMP3 Gene

Sources for IMP3 Gene

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