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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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