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    Rnpc3 RNA-binding region (RNP1, RRM) containing 3 [ Mus musculus (house mouse) ]

    Gene ID: 67225, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Rnpc3provided by MGI
    Official Full Name
    RNA-binding region (RNP1, RRM) containing 3provided by MGI
    Primary source
    MGI:MGI:1914475
    See related
    Ensembl:ENSMUSG00000027981 AllianceGenome:MGI:1914475
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    2810441O16Rik; C030014B17Rik
    Summary
    Predicted to enable U12 snRNA binding activity and pre-mRNA intronic binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be located in nucleoplasm. Predicted to be part of U12-type spliceosomal complex. Is expressed in central nervous system; dorsal root ganglion; nose; trigeminal nerve; and urinary system. Human ortholog(s) of this gene implicated in panhypopituitarism. Orthologous to human RNPC3 (RNA binding region (RNP1, RRM) containing 3). [provided by Alliance of Genome Resources, Nov 2024]
    Annotation information
    Annotation category: suggests misassembly
    Expression
    Broad expression in CNS E18 (RPKM 16.8), CNS E14 (RPKM 13.4) and 24 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Rnpc3 in Genome Data Viewer
    Location:
    3 F3; 3 49.35 cM
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (113398716..113423798, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (113605067..113630149, complement)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene amylase 2a1 Neighboring gene amylase 1, salivary Neighboring gene STARR-positive B cell enhancer mm9_chr3:113308015-113308316 Neighboring gene STARR-positive B cell enhancer mm9_chr3:113332370-113332671 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:113332840-113333141 Neighboring gene ribosomal protein L5 pseudogene Neighboring gene STARR-seq mESC enhancer starr_08733 Neighboring gene mortality factor 4 like 2 pseudogene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Early developmental arrest and impaired gastrointestinal homeostasis in U12-dependent splicing-defective Rnpc3-deficient mice. Doggett K, et al. RNA, 2018 Dec. PMID 30254136, Free PMC Article
    2. Srsf10 and the minor spliceosome control tissue-specific and dynamic SR protein expression. Meinke S, et al. Elife, 2020 Apr 27. PMID 32338600, Free PMC Article
    3. Minor spliceosome components are predominantly localized in the nucleus. Pessa HK, et al. Proc Natl Acad Sci U S A, 2008 Jun 24. PMID 18559850, Free PMC Article
    4. PRC1 and PRC2 are not required for targeting of H2A.Z to developmental genes in embryonic stem cells. Illingworth RS, et al. PLoS One, 2012. PMID 22496869, Free PMC Article
    5. Identification of anchor genes during kidney development defines ontological relationships, molecular subcompartments and regulatory pathways. Thiagarajan RD, et al. PLoS One, 2011 Feb 28. PMID 21386911, Free PMC Article

    See all (23) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 
    • Targeted (3)  1 citation

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables U12 snRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables pre-mRNA intronic binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of U12-type spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U12-type spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U12-type spliceosomal complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    RNA-binding region-containing protein 3
    Names
    RNA-binding motif protein 40
    RNA-binding protein 40

    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_001038696.1 → NP_001033785.1  RNA-binding region-containing protein 3 isoform a

      See identical proteins and their annotated locations for NP_001033785.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a). Variants 1 and 2 encode the same protein (isoform a).
      Source sequence(s)
      AK134241, AK161063, BY004661
      Consensus CDS
      CCDS17777.1
      UniProtKB/Swiss-Prot
      Q3TTZ2, Q3UZ01, Q69Z94, Q80VS9, Q91YJ1, Q9CSC1
      UniProtKB/TrEMBL
      F6TN13
      Related
      ENSMUSP00000089792.4, ENSMUST00000092154.10
      Conserved Domains (3) summary
      COG0724
      Location:311 → 509
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12238
      Location:28 → 100
      RRM1_RBM40_like; RNA recognition motif 1 in RNA-binding protein 40 (RBM40) and similar proteins
      cd12239
      Location:417 → 499
      RRM2_RBM40_like; RNA recognition motif 2 in RNA-binding protein 40 (RBM40) and similar proteins

    2. NM_001287015.1 → NP_001273944.1  RNA-binding region-containing protein 3 isoform b

      See identical proteins and their annotated locations for NP_001273944.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice site in the 3' coding region compared to variant 1. It encodes isoform b which is shorter than isoform a.
      Source sequence(s)
      AK134241, AK161063, BY004586
      Consensus CDS
      CCDS71308.1
      UniProtKB/TrEMBL
      F6TN13
      Related
      ENSMUSP00000102145.2, ENSMUST00000106535.2
      Conserved Domains (3) summary
      COG0724
      Location:311 → 513
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12238
      Location:28 → 100
      RRM1_RBM40_like; RNA recognition motif 1 in RNA-binding protein 40 (RBM40) and similar proteins
      cd12239
      Location:417 → 496
      RRM2_RBM40_like; RNA recognition motif 2 in RNA-binding protein 40 (RBM40) and similar proteins

    3. NM_026043.3 → NP_080319.2  RNA-binding region-containing protein 3 isoform a

      See identical proteins and their annotated locations for NP_080319.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 3' UTR compared to variant 1. Variants 1 and 2 encode the same protein (isoform a).
      Source sequence(s)
      AK134241, BC043695, BY004661
      Consensus CDS
      CCDS17777.1
      UniProtKB/Swiss-Prot
      Q3TTZ2, Q3UZ01, Q69Z94, Q80VS9, Q91YJ1, Q9CSC1
      UniProtKB/TrEMBL
      F6TN13
      Related
      ENSMUSP00000102146.2, ENSMUST00000106536.8
      Conserved Domains (3) summary
      COG0724
      Location:311 → 509
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12238
      Location:28 → 100
      RRM1_RBM40_like; RNA recognition motif 1 in RNA-binding protein 40 (RBM40) and similar proteins
      cd12239
      Location:417 → 499
      RRM2_RBM40_like; RNA recognition motif 2 in RNA-binding protein 40 (RBM40) and similar proteins

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000069.7 Reference GRCm39 C57BL/6J

      Range
      113398716..113423798 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q3UZ01.2 GenPept UniProtKB/Swiss-Prot:Q3UZ01

    Gene LinkOut

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

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