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Rbm42 RNA binding motif protein 42 [ Rattus norvegicus (Norway rat) ]

Gene ID: 361545, updated on 2-Nov-2024

Summary

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Official Symbol
Rbm42provided by RGD
Official Full Name
RNA binding motif protein 42provided by RGD
Primary source
RGD:1306184
See related
EnsemblRapid:ENSRNOG00000024278 AllianceGenome:RGD:1306184
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1306184
Summary
Predicted to enable mRNA binding activity. Predicted to act upstream of or within negative regulation of mRNA splicing, via spliceosome. Predicted to be located in cytoplasm. Predicted to be part of U4/U6 x U5 tri-snRNP complex. Orthologous to human RBM42 (RNA binding motif protein 42). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Thymus (RPKM 192.1), Lung (RPKM 170.3) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Rbm42 in Genome Data Viewer
Location:
1q21
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (95026050..95036020, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (85898618..85908569, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (89099296..89109248, complement)

Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene cytochrome c oxidase subunit 6B1 Neighboring gene ETS variant transcription factor 2 Neighboring gene HAUS augmin-like complex, subunit 5 Neighboring gene RIKEN cDNA 2200002J24 gene like Neighboring gene PMIS2 transmembrane protein

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. A broadly applicable high-throughput screening strategy identifies new regulators of Dlg4 (Psd-95) alternative splicing. Zheng S, et al. Genome Res, 2013 Jun. PMID 23636947, Free PMC Article
  2. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674
  3. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables mRNA binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within negative regulation of mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of U4/U6 x U5 tri-snRNP complex ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
RNA-binding protein 42

NCBI Reference Sequences (RefSeq)

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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_001014159.2 → NP_001014181.2  RNA-binding protein 42

    See identical proteins and their annotated locations for NP_001014181.2

    Status: VALIDATED

    Source sequence(s)
    BC079321, BI273871, BP504208
    UniProtKB/Swiss-Prot
    G3V8X1, Q6AXT7
    Related
    ENSRNOP00000029729.3, ENSRNOT00000031254.5
    Conserved Domains (1) summary
    cd12383
    Location:373 → 455
    RRM_RBM42; RNA recognition motif (RRM) found in RNA-binding protein 42 (RBM42) and similar proteins

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086019.1 Reference GRCr8

    Range
    95026050..95036020 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006228781.5 → XP_006228843.1  RNA-binding protein 42 isoform X1

    UniProtKB/TrEMBL
    A0A0G2JXM6
    Related
    ENSRNOP00000070333.2, ENSRNOT00000087437.3
    Conserved Domains (1) summary
    cd12383
    Location:344 → 426
    RRM_RBM42; RNA recognition motif (RRM) found in RNA-binding protein 42 (RBM42) and similar proteins
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6AXT7.2 GenPept UniProtKB/Swiss-Prot:Q6AXT7

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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