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

Gene ID: 366262, updated on 4-Jan-2025

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
EnsemblRapid: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 gene expression; 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, Jan 2025]
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 cell differentiation IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA processing 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, ENSRNOT00000008764.8
    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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