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    rbm47 RNA binding motif protein 47 [ Danio rerio (zebrafish) ]

    Gene ID: 562991, updated on 9-Dec-2024

    Summary

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    Official Symbol
    rbm47provided by ZNC
    Official Full Name
    RNA binding motif protein 47provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-9612
    See related
    Ensembl:ENSDARG00000061985 AllianceGenome:ZFIN:ZDB-GENE-030131-9612
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    wu:fj94a03; si:ch211-241e15.2
    Summary
    Predicted to enable mRNA binding activity. Acts upstream of or within head development and regulation of anterior head development. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Orthologous to human RBM47 (RNA binding motif protein 47). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See rbm47 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (19353048..19402815, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 1 NC_007112.6 (18660111..18710359, complement)

    Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene si:dkeyp-118a3.2 Neighboring gene tyrosinase-related protein 1b Neighboring gene leucine aminopeptidase 3 Neighboring gene clock circadian regulator b

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Zebrafish RBM47 Promotes Lysosome-Dependent Degradation of MAVS to Inhibit IFN Induction. Lu LF, et al. J Immunol, 2020 Oct 1. PMID 32859727
    2. rbm47, a novel RNA binding protein, regulates zebrafish head development. Guan R, et al. Dev Dyn, 2013 Dec. PMID 24038582
    3. Candidate gene identification of ovulation-inducing genes by RNA sequencing with an in vivo assay in zebrafish. Klangnurak W, et al. PLoS One, 2018. PMID 29715317, Free PMC Article
    4. Hematopoietic gene expression profile in zebrafish kidney marrow. Song HD, et al. Proc Natl Acad Sci U S A, 2004 Nov 16. PMID 15520368, Free PMC Article
    5. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within head development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of anterior head development IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    RNA-binding protein 47

    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_001114686.2 → NP_001108158.1  RNA-binding protein 47

      Status: PROVISIONAL

      Source sequence(s)
      BX901913
      UniProtKB/Swiss-Prot
      A0A8M1NHK4, A2BIC5
      Related
      ENSDARP00000116938.1, ENSDART00000135552.2
      Conserved Domains (4) summary
      cd12485
      Location:81 → 158
      RRM1_RBM47; RNA recognition motif 1 found in vertebrate RNA-binding protein 47 (RBM47)
      cd12491
      Location:161 → 249
      RRM2_RBM47; RNA recognition motif 2 in vertebrate RNA-binding protein 47 (RBM47)
      TIGR01648
      Location:34 → 600
      hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
      cl17169
      Location:256 → 329
      RRM_SF; RNA recognition motif (RRM) superfamily

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007112.7 Reference GRCz11 Primary Assembly

      Range
      19353048..19402815 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021475398.2 → XP_021331073.1  RNA-binding protein 47 isoform X1

      UniProtKB/TrEMBL
      A0A8M9PVG8
      Conserved Domains (1) summary
      TIGR01648
      Location:34 → 601
      hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family

    2. XM_005168361.5 → XP_005168418.1  RNA-binding protein 47 isoform X2

      UniProtKB/TrEMBL
      A0A8M2BFN4
      Conserved Domains (4) summary
      cd12485
      Location:81 → 158
      RRM1_RBM47; RNA recognition motif 1 found in vertebrate RNA-binding protein 47 (RBM47)
      cd12491
      Location:161 → 249
      RRM2_RBM47; RNA recognition motif 2 in vertebrate RNA-binding protein 47 (RBM47)
      TIGR01648
      Location:34 → 532
      hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
      cl17169
      Location:256 → 329
      RRM_SF; RNA recognition motif (RRM) superfamily

    3. XM_005168359.5 → XP_005168416.1  RNA-binding protein 47 isoform X1

      See identical proteins and their annotated locations for XP_005168416.1

      UniProtKB/TrEMBL
      A0A8M9PVG8
      Conserved Domains (1) summary
      TIGR01648
      Location:34 → 601
      hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family

    4. XM_005168360.5 → XP_005168417.1  RNA-binding protein 47 isoform X1

      See identical proteins and their annotated locations for XP_005168417.1

      UniProtKB/TrEMBL
      A0A8M9PVG8
      Conserved Domains (1) summary
      TIGR01648
      Location:34 → 601
      hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family

    5. XM_009307327.4 → XP_009305602.1  RNA-binding protein 47 isoform X1

      See identical proteins and their annotated locations for XP_009305602.1

      UniProtKB/TrEMBL
      A0A8M9PVG8
      Conserved Domains (1) summary
      TIGR01648
      Location:34 → 601
      hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A0A8M1NHK4.1 GenPept UniProtKB/Swiss-Prot:A0A8M1NHK4

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