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

    Gene ID: 361545, updated on 9-Dec-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, Dec 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
    • 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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