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RNPC3 RNA binding region (RNP1, RRM) containing 3 [ Homo sapiens (human) ]

Gene ID: 55599, updated on 12-Oct-2019

Summary

Official Symbol
RNPC3provided by HGNC
Official Full Name
RNA binding region (RNP1, RRM) containing 3provided by HGNC
Primary source
HGNC:HGNC:18666
See related
Ensembl:ENSG00000185946 MIM:618016
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
RNP; IGHD5; RBM40; SNRNP65
Summary
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]
Expression
Ubiquitous expression in thyroid (RPKM 16.8), endometrium (RPKM 15.6) and 25 other tissues See more
Orthologs

Genomic context

See RNPC3 in Genome Data Viewer
Location:
1p21.1
Exon count:
15
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (103525699..103555239)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (104068323..104097861)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene collagen type XI alpha 1 chain Neighboring gene superoxide dismutase 2 pseudogene 1 Neighboring gene uncharacterized LOC101928436 Neighboring gene RN7SK pseudogene 285 Neighboring gene actin gamma 1 pseudogene 4 Neighboring gene amylase alpha 2B Neighboring gene amylase alpha 2A

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

Pathways from BioSystems

  • Gene Expression, organism-specific biosystem (from REACTOME)
    Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
  • Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystem (from REACTOME)
    Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystemCo-transcriptional pre-mRNA splicing is not obligatory. Pre-mRNA splicing begins co-transcriptionally and often continues post-transcriptionally. Human genes contain an average of nine introns per ge...
  • mRNA Splicing, organism-specific biosystem (from REACTOME)
    mRNA Splicing, organism-specific biosystemThe process in which excision of introns from the primary transcript of messenger RNA (mRNA) is followed by ligation of the two exon termini exposed by removal of each intron, is called mRNA splicing...
  • mRNA Splicing - Minor Pathway, organism-specific biosystem (from REACTOME)
    mRNA Splicing - Minor Pathway, organism-specific biosystemThe splicing of a subset of pre-mRNA introns occurs by a second pathway, designated the AT-AC or U12-dependent splicing pathway. AT-AC introns have highly conserved, non-canonical splice sites that ...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA183, FLJ20008, FLJ25070, DKFZp667O0118

Gene Ontology Provided by GOA

Function Evidence Code Pubs
U12 snRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
pre-mRNA intronic binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
RNA splicing IC
Inferred by Curator
more info
PubMed 
mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA splicing, via spliceosome TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
U12-type spliceosomal complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
U12-type spliceosomal complex IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
RNA-binding region-containing protein 3
Names
RNA-binding motif protein 40
RNA-binding protein 40
U11/U12 small nuclear ribonucleoprotein 65 kDa protein
U11/U12 snRNP 65 kDa protein
U11/U12 snRNP 65K
U11/U12-65K

NCBI Reference Sequences (RefSeq)

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_017619.4NP_060089.1  RNA-binding region-containing protein 3

    See identical proteins and their annotated locations for NP_060089.1

    Status: REVIEWED

    Source sequence(s)
    AC095032, AY099329, BC010697, CN386195
    Consensus CDS
    CCDS781.1
    UniProtKB/Swiss-Prot
    Q96LT9
    Related
    ENSP00000391432.1, ENST00000423855.7
    Conserved Domains (3) summary
    COG0724
    Location:333515
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12238
    Location:28100
    RRM1_RBM40_like; RNA recognition motif 1 in RNA-binding protein 40 (RBM40) and similar proteins
    cd12239
    Location:419501
    RRM2_RBM40_like; RNA recognition motif 2 in RNA-binding protein 40 (RBM40) and similar proteins

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20190905

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    103525699..103555239
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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