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Aliases for RNPC3 Gene

Aliases for RNPC3 Gene

  • RNA-Binding Region (RNP1, RRM) Containing 3 2 3
  • U11/U12 Small Nuclear Ribonucleoprotein 65 KDa Protein 3 4
  • RNA-Binding Region-Containing Protein 3 3 4
  • RNA-Binding Motif Protein 40 3 4
  • U11/U12 SnRNP 65 KDa Protein 3 4
  • U11/U12 SnRNP 65K 2 3
  • U11/U12-65K 3 4
  • RBM40 3 4
  • RNP 3 4
  • RNA Recognition Protein 3
  • RNA-Binding Protein 40 3
  • KIAA1839 4
  • SNRNP65 3

External Ids for RNPC3 Gene

Previous GeneCards Identifiers for RNPC3 Gene

  • GC00U991276
  • GC01P103782
  • GC01P103893
  • GC01P104068
  • GC01P102123

Summaries for RNPC3 Gene

Entrez Gene Summary for RNPC3 Gene

  • Two types of spliceosomes catalyze splicing of pre-mRNAs. The major U2-type spliceosome is found in all eukaryotes and removes U2-type introns, which represent more than 99% of pre-mRNA introns. The minor U12-type spliceosome is found in some eukaryotes and removes U12-type introns, which are rare and have distinct splice consensus signals. The U12-type spliceosome consists of several small nuclear RNAs and associated proteins. This gene encodes a 65K protein that is a component of the U12-type spliceosome. This protein contains two RNA recognition motifs (RRMs), suggesting that it may contact one of the small nuclear RNAs of the minor spliceosome. [provided by RefSeq, Jul 2008]

GeneCards Summary for RNPC3 Gene

RNPC3 (RNA-Binding Region (RNP1, RRM) Containing 3) is a Protein Coding gene. Diseases associated with RNPC3 include growth hormone deficiency, isolated, type ia and connective tissue disease. GO annotations related to this gene include RNA binding and nucleotide binding. An important paralog of this gene is RBM41.

UniProtKB/Swiss-Prot for RNPC3 Gene

  • Participates in pre-mRNA U12-dependent splicing, performed by the minor spliceosome which removes U12-type introns. U12-type introns comprises less than 1% of all non-coding sequences. Binds to the 3-stem-loop of m(7)G-capped U12 snRNA.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RNPC3 Gene

Genomics for RNPC3 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for RNPC3 Gene

Start:
103,525,691 bp from pter
End:
103,555,239 bp from pter
Size:
29,549 bases
Orientation:
Plus strand

Genomic View for RNPC3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for RNPC3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RNPC3 Gene

Proteins for RNPC3 Gene

  • Protein details for RNPC3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96LT9-RBM40_HUMAN
    Recommended name:
    RNA-binding protein 40
    Protein Accession:
    Q96LT9
    Secondary Accessions:
    • A8K1C9
    • D3DT74
    • Q5TZ87
    • Q96FK7
    • Q96JI8
    • Q9NSU7
    • Q9NXX2

    Protein attributes for RNPC3 Gene

    Size:
    517 amino acids
    Molecular mass:
    58575 Da
    Quaternary structure:
    • Component of the U11/U12 snRNPs that are part of the U12-type spliceosome. Found in a complex with m(7)G-capped U12 snRNA. Interacts with PDCD7.
    SequenceCaution:
    • Sequence=BAA90885.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAA90885.1; Type=Miscellaneous discrepancy; Note=Potential poly-A sequence.; Evidence={ECO:0000305}; Sequence=BAB47468.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for RNPC3 Gene

    Alternative splice isoforms for RNPC3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RNPC3 Gene

Proteomics data for RNPC3 Gene at MOPED

Post-translational modifications for RNPC3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RNPC3 Gene

No data available for DME Specific Peptides for RNPC3 Gene

Domains for RNPC3 Gene

Gene Families for RNPC3 Gene

HGNC:
  • RBM :RNA binding motif (RRM) containing

Protein Domains for RNPC3 Gene

Suggested Antigen Peptide Sequences for RNPC3 Gene

Graphical View of Domain Structure for InterPro Entry

Q96LT9

UniProtKB/Swiss-Prot:

RBM40_HUMAN :
  • Q96LT9
Domain:
  • Contains 2 RRM (RNA recognition motif) domains.
genes like me logo Genes that share domains with RNPC3: view

Function for RNPC3 Gene

Molecular function for RNPC3 Gene

UniProtKB/Swiss-Prot Function: Participates in pre-mRNA U12-dependent splicing, performed by the minor spliceosome which removes U12-type introns. U12-type introns comprises less than 1% of all non-coding sequences. Binds to the 3-stem-loop of m(7)G-capped U12 snRNA.

Gene Ontology (GO) - Molecular Function for RNPC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0003676 nucleic acid binding --
GO:0003723 RNA binding IEA --
genes like me logo Genes that share ontologies with RNPC3: view

Phenotypes for RNPC3 Gene

genes like me logo Genes that share phenotypes with RNPC3: view

miRNA for RNPC3 Gene

miRTarBase miRNAs that target RNPC3

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for RNPC3

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for RNPC3 Gene

Localization for RNPC3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RNPC3 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RNPC3 Gene COMPARTMENTS Subcellular localization image for RNPC3 gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for RNPC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 18559850
GO:0005654 nucleoplasm IDA --
GO:0005689 U12-type spliceosomal complex IDA 15146077
genes like me logo Genes that share ontologies with RNPC3: view

Pathways for RNPC3 Gene

SuperPathways for RNPC3 Gene

No Data Available

Interacting Proteins for RNPC3 Gene

Gene Ontology (GO) - Biological Process for RNPC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006397 mRNA processing IEA --
GO:0008380 RNA splicing IC 15146077
genes like me logo Genes that share ontologies with RNPC3: view

No data available for Pathways by source for RNPC3 Gene

Compounds for RNPC3 Gene

(38) Novoseek inferred chemical compound relationships for RNPC3 Gene

Compound -log(P) Hits PubMed IDs
pseudouridine 54.3 6
cardiolipin 49.6 11
ctds 33.1 1
uridine 33 4
leptomycin b 31.2 1
genes like me logo Genes that share compounds with RNPC3: view

Transcripts for RNPC3 Gene

Unigene Clusters for RNPC3 Gene

RNA-binding region (RNP1, RRM) containing 3:
Representative Sequences:

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for RNPC3

Primer Products

  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for RNPC3 Gene

No ASD Table

Relevant External Links for RNPC3 Gene

GeneLoc Exon Structure for
RNPC3
ECgene alternative splicing isoforms for
RNPC3

Expression for RNPC3 Gene

mRNA expression in normal human tissues for RNPC3 Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for RNPC3 Gene

SOURCE GeneReport for Unigene cluster for RNPC3 Gene Hs.632423

mRNA Expression by UniProt/SwissProt for RNPC3 Gene

Q96LT9-RBM40_HUMAN
Tissue specificity: Highly expressed in pancreas and kidney. Detected at lower levels in heart, brain, placenta, lung, liver, spleen, thymus, prostate, testis, ovary, small intestine, colon and leukocytes.
genes like me logo Genes that share expressions with RNPC3: view

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for RNPC3 Gene

Orthologs for RNPC3 Gene

This gene was present in the common ancestor of animals.

Orthologs for RNPC3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RNPC3 35
  • 99.68 (n)
  • 99.81 (a)
RNPC3 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia RNPC3 35
  • 91.73 (n)
  • 93.41 (a)
RNPC3 36
  • 93 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RNPC3 35
  • 92.05 (n)
  • 92.83 (a)
RNPC3 36
  • 93 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rnpc3 35
  • 87.29 (n)
  • 89.3 (a)
Rnpc3 16
Rnpc3 36
  • 88 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia RNPC3 36
  • 79 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RNPC3 36
  • 79 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rnpc3 35
  • 85.37 (n)
  • 88.35 (a)
chicken
(Gallus gallus)
Aves RNPC3 35
  • 74.33 (n)
  • 72.48 (a)
RNPC3 36
  • 64 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RNPC3 36
  • 70 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.33695 35
tropical clawed frog
(Silurana tropicalis)
Amphibia rnpc3 35
  • 63.5 (n)
  • 58.23 (a)
Str.10852 35
zebrafish
(Danio rerio)
Actinopterygii rnpc3 35
  • 62.31 (n)
  • 62.24 (a)
rnpc3 36
  • 53 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta Snp 36
  • 24 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 39 (a)
OneToOne
Species with no ortholog for RNPC3:
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for RNPC3 Gene

ENSEMBL:
Gene Tree for RNPC3 (if available)
TreeFam:
Gene Tree for RNPC3 (if available)

Paralogs for RNPC3 Gene

Paralogs for RNPC3 Gene

Pseudogenes.org Pseudogenes for RNPC3 Gene

genes like me logo Genes that share paralogs with RNPC3: view

Variants for RNPC3 Gene

Sequence variations from dbSNP and Humsavar for RNPC3 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type MAF
rs1060309 -- 103,552,376(-) TTTAT(C/T)CCAGG intron-variant
rs3922883 -- 103,528,693(+) TATTA(A/G)TGAGA intron-variant
rs3922884 -- 103,529,003(+) CTGCA(A/G)CTGTC intron-variant
rs6669851 -- 103,540,113(+) ccgcc(C/G)tcctt intron-variant
rs6673083 -- 103,541,061(+) TATTT(C/T)GGCAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RNPC3 Gene

Variant ID Type Subtype PubMed ID
dgv14n21 CNV Gain 19592680
nsv830904 CNV Loss 17160897
dgv75e1 CNV Complex 17122850
dgv76e1 CNV Complex 17122850
dgv77e1 CNV Complex 17122850
nsv428157 CNV Gain+Loss 18775914
nsv526367 CNV Gain 19592680
nsv830915 CNV Gain+Loss 17160897
nsv523177 CNV Gain 19592680
dgv294n71 CNV Gain 21882294
dgv295n71 CNV Gain+Loss 21882294
nsv871791 CNV Loss 21882294
esv27438 CNV Gain 19812545
dgv78e1 CNV Complex 17122850

Relevant External Links for RNPC3 Gene

HapMap Linkage Disequilibrium report
RNPC3
Human Gene Mutation Database (HGMD)
RNPC3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RNPC3 Gene

Disorders for RNPC3 Gene

(1) University of Copenhagen DISEASES for RNPC3 Gene

(38) Novoseek inferred disease relationships for RNPC3 Gene

Disease -log(P) Hits PubMed IDs
mixed connective tissue disease 77.9 9
lupus erythematosus systemic 64.3 13
other connective tissue disease 57.2 2
connective tissue diseases 54.5 5
influenza 49.6 14
genes like me logo Genes that share disorders with RNPC3: view

No data available for UniProtKB/Swiss-Prot for RNPC3 Gene

Publications for RNPC3 Gene

  1. Cloning and identification of a novel human RNPC3 gene that encodes a protein with two RRM domains and is expressed in the cell nucleus. (PMID: 14974681) Zhao E. … Mao Y. (Biochem. Genet. 2003) 2 3 4
  2. The human 18S U11/U12 snRNP contains a set of novel proteins not found in the U2-dependent spliceosome. (PMID: 15146077) Will C.L. … Luehrmann R. (RNA 2004) 2 3 4
  3. Prediction of the coding sequences of unidentified human genes. XX. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 11347906) Nagase T. … Ohara O. (DNA Res. 2001) 3 4
  4. The U11/U12 snRNP 65K protein acts as a molecular bridge, binding the U12 snRNA and U11-59K protein. (PMID: 16096647) Benecke H. … Will C.L. (EMBO J. 2005) 3 4
  5. Protein microarray analysis identifies human cellular prion protein interactors. (PMID: 18482256) Satoh J. … Tabunoki H. (Neuropathol. Appl. Neurobiol. 2009) 3

Products for RNPC3 Gene

Sources for RNPC3 Gene

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