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    Rbm38 RNA binding motif protein 38 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 366262, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Rbm38provided by RGD
    Official Full Name
    RNA binding motif protein 38provided by RGD
    Primary source
    RGD:1308503
    See related
    Ensembl:ENSRNOG00000006420 AllianceGenome:RGD:1308503
    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
    Rnpc1
    Summary
    Predicted to enable mRNA 3'-UTR binding activity. Predicted to be involved in several processes, including DNA damage response, signal transduction by p53 class mediator; regulation of RNA metabolic process; and regulation of myotube differentiation. Predicted to be active in cytosol and nucleus. Orthologous to human RBM38 (RNA binding motif protein 38). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Spleen (RPKM 249.6), Heart (RPKM 169.0) and 6 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rbm38 in Genome Data Viewer
    Location:
    3q42
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (182219898..182232723)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (161801577..161814381)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (171037891..171050500)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134486500 Neighboring gene ribonucleic acid export 1 Neighboring gene uncharacterized LOC102550425 Neighboring gene ubiquitin C-terminal hydrolase L3, pseudogene 1

    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. RNA-binding proteins Rbm38 and Rbm24 regulate myogenic differentiation via p21-dependent and -independent regulatory pathways. Miyamoto S, et al. Genes Cells, 2009 Nov. PMID 19817877
    2. RNPC1, an RNA-binding protein and a target of the p53 family, is required for maintaining the stability of the basal and stress-induced p21 transcript. Shu L, et al. Genes Dev, 2006 Nov 1. PMID 17050675, Free PMC Article
    3. ESRP1 and ESRP2 are epithelial cell-type-specific regulators of FGFR2 splicing. Warzecha CC, et al. Mol Cell, 2009 Mar 13. PMID 19285943, Free PMC Article
    4. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
    5. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables mRNA 3'-UTR binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables mRNA 3'-UTR binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in 3'-UTR-mediated mRNA stabilization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of RNA splicing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of RNA splicing ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT involved_in regulation of cell cycle ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cell cycle ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of myotube differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    RNA-binding protein 38
    Names
    RNA-binding region (RNP1, RRM) containing 1

    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_001108965.2 → NP_001102435.1  RNA-binding protein 38 isoform 2

      See identical proteins and their annotated locations for NP_001102435.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/TrEMBL
      A6KKY9
      Conserved Domains (2) summary
      TIGR00927
      Location:69 → 115
      2A1904; K+-dependent Na+/Ca+ exchanger
      cl17169
      Location:11 → 28
      RRM_SF; RNA recognition motif (RRM) superfamily

    2. NM_001398951.1 → NP_001385880.1  RNA-binding protein 38 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/TrEMBL
      A6KKY8, D3ZGE9
      Related
      ENSRNOP00000008764.5, ENSRNOT00000008764.7
      Conserved Domains (2) summary
      TIGR01628
      Location:44 → 237
      PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
      cd12384
      Location:32 → 107
      RRM_RBM24_RBM38_like; RNA recognition motif (RRM) found in eukaryotic RNA-binding protein RBM24, RBM38 and similar proteins

    3. NM_001398952.1 → NP_001385881.1  RNA-binding protein 38 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/TrEMBL
      A6KKY9
      Conserved Domains (2) summary
      TIGR00927
      Location:69 → 115
      2A1904; K+-dependent Na+/Ca+ exchanger
      cl17169
      Location:11 → 28
      RRM_SF; RNA recognition motif (RRM) superfamily

    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_086021.1 Reference GRCr8

      Range
      182219898..182232723
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063284292.1 → XP_063140362.1  RNA-binding protein 38 isoform X1

    Nucleotide Protein Strain
    Heading Accession and Version

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