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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. Diseases associated with IMP3 include Enchondroma. Among its related pathways are MAPK-Erk Pathway and rRNA processing in the nucleus and cytosol. GO annotations related to this gene include poly(A) RNA binding and 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

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

Genomics for IMP3 Gene

Regulatory Elements for IMP3 Gene

Enhancers for IMP3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH15G075604 1 Ensembl ENCODE 11.6 +42.0 41962 4.0 IRF2 TAL1 ZBTB40 ZKSCAN1 TCF12 ZNF316 NCOR1 NFE2 MAFK ZNF521 MAN2C1 SNUPN PTPN9 ENSG00000203392 CSPG4 IMP3 SNX33 MIR631 ENSG00000260269 ENSG00000260235
GH15G075775 0.9 ENCODE 12.1 -127.6 -127613 0.7 ATF1 INSM2 KLF17 ZEB1 RARA GLIS2 ZNF366 FOS ZNF391 TSHZ1 ENSG00000261043 CSPG4 ENSG00000203392 IMP3 SNX33 LOC441728 GC15P075786
GH15G075619 0.9 Ensembl ENCODE 11.6 +27.3 27330 3.2 SCRT1 CTCF JUN ZNF121 JUND SCRT2 SMC3 FOS MAN2C1 SNUPN ENSG00000260274 PTPN9 SNX33 IMP3 ENSG00000203392 CSPG4 MIR631 ENSG00000260235
GH15G075776 0.7 ENCODE 12.1 -126.8 -126769 0.2 SCRT1 PKNOX1 LEF1 SP3 RFX1 NFYC SP2 POLR2A SCRT2 CREB1 CSPG4 ENSG00000203392 IMP3 SNX33 ENSG00000261043 LOC441728 GC15P075786
GH15G075597 0.7 ENCODE 11.9 +50.8 50792 0.2 HDAC1 CTCF DDX20 RAD21 YY1 ZNF316 GATA2 NCOR1 SMC3 HES1 SNX33 IMP3 ENSG00000203392 CSPG4 ENSG00000260269 PTPN9
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around IMP3 on UCSC Golden Path with GeneCards custom track

Promoters for IMP3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000079426 806 1801 ARID4B SIN3A FEZF1 DMAP1 ZNF2 ZBTB7B ZNF766 ZNF143 ZNF263 SP3

Genomic Location for IMP3 Gene

Chromosome:
15
Start:
75,639,085 bp from pter
End:
75,648,706 bp from pter
Size:
9,622 bases
Orientation:
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:
    Q9NV31-IMP3_HUMAN
    Recommended name:
    U3 small nucleolar ribonucleoprotein protein IMP3
    Protein Accession:
    Q9NV31
    Secondary Accessions:
    • B3KQ67
    • Q53G10

    Protein attributes for IMP3 Gene

    Size:
    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 posLast=8282
  • 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

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

Q9NV31

UniProtKB/Swiss-Prot:

IMP3_HUMAN :
  • Belongs to the universal ribosomal protein uS4 family.
Family:
  • Belongs to the universal ribosomal protein uS4 family.
genes like me logo Genes that share domains with IMP3: view

No data available for Gene Families for IMP3 Gene

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.

Gene Ontology (GO) - Molecular Function for IMP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IDA 22658674
GO:0003735 NOT structural constituent of ribosome IBA --
GO:0005515 protein binding IPI 12655004
GO:0019843 NOT rRNA binding IBA --
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

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry 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

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

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 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 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

Transcripts for IMP3 Gene

mRNA/cDNA for IMP3 Gene

Unigene Clusters for IMP3 Gene

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

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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

No ASD Table

Relevant External Links for IMP3 Gene

GeneLoc Exon Structure for
IMP3
ECgene alternative splicing isoforms for
IMP3

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, PaxDb, MaxQB, and MOPED for IMP3 Gene



Protein tissue co-expression partners for IMP3 Gene

NURSA nuclear receptor signaling pathways regulating expression of IMP3 Gene:

IMP3

SOURCE GeneReport for Unigene cluster for IMP3 Gene:

Hs.513043

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

Primer Products

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
chimpanzee
(Pan troglodytes)
Mammalia IMP3 34 35
  • 99.64 (n)
dog
(Canis familiaris)
Mammalia IMP3 34 35
  • 91.67 (n)
cow
(Bos Taurus)
Mammalia IMP3 34 35
  • 90.4 (n)
mouse
(Mus musculus)
Mammalia Imp3 34 16 35
  • 89.86 (n)
rat
(Rattus norvegicus)
Mammalia Imp3 34
  • 88.59 (n)
oppossum
(Monodelphis domestica)
Mammalia IMP3 35
  • 85 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia IMP3 35
  • 73 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia imp3 34
  • 64.83 (n)
Str.17594 34
African clawed frog
(Xenopus laevis)
Amphibia Xl.10835 34
zebrafish
(Danio rerio)
Actinopterygii imp3 34 35
  • 60.98 (n)
zgc56526 34
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP006372 34
  • 62.25 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG4866 34 35
  • 58.38 (n)
worm
(Caenorhabditis elegans)
Secernentea C48B6.2 34 35
  • 52.49 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ADL131C 34
  • 61.3 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0E15995g 34
  • 52.78 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes IMP3 34 35 37
  • 52.67 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G15750 34
  • 54.03 (n)
soybean
(Glycine max)
eudicotyledons Gma.3731 34
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.5075 34
rice
(Oryza sativa)
Liliopsida Os04g0662100 34
  • 62.96 (n)
Os.15267 34
wheat
(Triticum aestivum)
Liliopsida Ta.13412 34
corn
(Zea mays)
Liliopsida Zm.3908 34
sea squirt
(Ciona savignyi)
Ascidiacea CSA.54 35
  • 63 (a)
OneToOne
bread mold
(Neurospora crassa)
Ascomycetes NCU01008 34
  • 56.35 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes imp3 34
  • 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

ENSEMBL:
Gene Tree for IMP3 (if available)
TreeFam:
Gene Tree for IMP3 (if available)

Paralogs for IMP3 Gene

Pseudogenes.org 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 Sequence Context AA Info Type
rs1000768870 -- 75,640,648(+) CCGGC(C/T)CTCCT upstream-variant-2KB
rs1000820280 -- 75,640,418(+) GGGAG(C/T)GGGTC upstream-variant-2KB
rs1002401725 -- 75,641,284(+) ATTAG(C/T)CAAGC upstream-variant-2KB
rs1005525448 -- 75,641,097(+) GTATG(C/T)TTTTC upstream-variant-2KB
rs1005787054 -- 75,640,743(+) ATAGG(C/T)GGCAC upstream-variant-2KB

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)

Relevant External Links for IMP3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
IMP3

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

Disorders for IMP3 Gene

MalaCards: The human disease database

(1) MalaCards diseases for IMP3 Gene - From: GeneCards

Disorder Aliases PubMed IDs
enchondroma
- elite association - COSMIC cancer census association via MalaCards
Search IMP3 in MalaCards View complete list of genes associated with diseases

Relevant External Links for IMP3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
IMP3
genes like me logo Genes that share disorders with IMP3: view

No data available for 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 G.J.M. (Nucleic Acids Res. 2003) 2 3 4 22 64
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  4. 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 64
  5. Towards 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 Res. 2001) 3 4 64

Products for IMP3 Gene

Sources for IMP3 Gene

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