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    Rbm27 RNA binding motif protein 27 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 361317, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Rbm27provided by RGD
    Official Full Name
    RNA binding motif protein 27provided by RGD
    Primary source
    RGD:1311966
    See related
    Ensembl:ENSRNOG00000027250 AllianceGenome:RGD:1311966
    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
    Summary
    Predicted to enable RNA binding activity. Predicted to be involved in mRNA processing. Predicted to be active in nucleus. Orthologous to human RBM27 (RNA binding motif protein 27). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 119.7), Spleen (RPKM 115.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rbm27 in Genome Data Viewer
    Location:
    18p11
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 18 NC_086036.1 (34524523..34587115)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 18 NC_051353.1 (34273527..34336124)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 18 NC_005117.4 (36596568..36657157)

    Chromosome 18 - NC_086036.1Genomic Context describing neighboring genes Neighboring gene 40S ribosomal protein SA pseudogene Neighboring gene PLAC8-like 1 Neighboring gene leucyl-tRNA synthetase 1 Neighboring gene U6 spliceosomal RNA Neighboring gene POU class 4 homeobox 3

    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. Sequential Elution Interactome Analysis of the Mind Bomb 1 Ubiquitin Ligase Reveals a Novel Role in Dendritic Spine Outgrowth. Mertz J, et al. Mol Cell Proteomics, 2015 Jul. PMID 25931508, Free PMC Article
    2. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
    3. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674
    4. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    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

    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 RGD

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    RNA-binding protein 27

    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_001108429.2 → NP_001101899.2  RNA-binding protein 27 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate exon as well as a portion of the coding region compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      CK842888, JAXUCZ010000018
      UniProtKB/TrEMBL
      A0A8I5ZN77, F1M1R4
      Related
      ENSRNOP00000079719.1, ENSRNOT00000108854.1
      Conserved Domains (5) summary
      PRK03918
      Location:751 → 878
      PRK03918; DNA double-strand break repair ATPase Rad50
      pfam00642
      Location:277 → 299
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      pfam15991
      Location:606 → 770
      G_path_suppress; G-protein pathway suppressor
      cl02562
      Location:7 → 72
      PWI; PWI domain
      cl17169
      Location:544 → 619
      RRM_SF; RNA recognition motif (RRM) superfamily

    2. NM_001372344.1 → NP_001359273.1  RNA-binding protein 27 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      CK842888, JAXUCZ010000018
      UniProtKB/TrEMBL
      A0A8I5ZS16, F1M1R4
      Related
      ENSRNOP00000081461.1, ENSRNOT00000119222.1
      Conserved Domains (6) summary
      PRK03918
      Location:806 → 933
      PRK03918; DNA double-strand break repair ATPase Rad50
      cd12517
      Location:599 → 674
      RRM_RBM27; RNA recognition motif of vertebrate RNA-binding protein 27 (RBM27)
      pfam00642
      Location:277 → 299
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      pfam15991
      Location:661 → 825
      G_path_suppress; G-protein pathway suppressor
      cl02562
      Location:7 → 72
      PWI; PWI domain
      cl17169
      Location:971 → 1013
      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_086036.1 Reference GRCr8

      Range
      34524523..34587115
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008772179.4 → XP_008770401.1  RNA-binding protein 27 isoform X1

      See identical proteins and their annotated locations for XP_008770401.1

      UniProtKB/TrEMBL
      F1M1R4
      Conserved Domains (4) summary
      cd12517
      Location:599 → 674
      RRM_RBM27; RNA recognition motif of vertebrate RNA-binding protein 27 (RBM27)
      pfam00642
      Location:277 → 299
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      cl02562
      Location:7 → 72
      PWI; PWI domain
      cl17169
      Location:971 → 1013
      RRM_SF; RNA recognition motif (RRM) superfamily

    2. XM_006254678.5 → XP_006254740.1  RNA-binding protein 27 isoform X2

      See identical proteins and their annotated locations for XP_006254740.1

      UniProtKB/TrEMBL
      F1M1R4
      Conserved Domains (3) summary
      pfam00642
      Location:277 → 299
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      cl02562
      Location:7 → 72
      PWI; PWI domain
      cl17169
      Location:544 → 619
      RRM_SF; RNA recognition motif (RRM) superfamily

    3. XM_006254680.5 → XP_006254742.1  RNA-binding protein 27 isoform X3

      See identical proteins and their annotated locations for XP_006254742.1

      UniProtKB/TrEMBL
      F1M1R4
      Conserved Domains (2) summary
      cl02562
      Location:7 → 72
      PWI; PWI domain
      cl17169
      Location:501 → 576
      RRM_SF; RNA recognition motif (RRM) superfamily

    4. XM_063277467.1 → XP_063133537.1  RNA-binding protein 27 isoform X4

      UniProtKB/TrEMBL
      A0A8I6AS62

    5. XM_063277468.1 → XP_063133538.1  RNA-binding protein 27 isoform X5

    6. XM_063277469.1 → XP_063133539.1  RNA-binding protein 27 isoform X6

    Nucleotide Protein Strain
    Heading Accession and Version

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