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rbfox2 RNA binding fox-1 homolog 2 [ Danio rerio (zebrafish) ]

Gene ID: 406569, updated on 11-Apr-2024

Summary

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Official Symbol
rbfox2provided by ZNC
Official Full Name
RNA binding fox-1 homolog 2provided by ZNC
Primary source
ZFIN:ZDB-GENE-040426-2464
See related
Ensembl:ENSDARG00000052182 AllianceGenome:ZFIN:ZDB-GENE-040426-2464
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
rbm9; zgc:85694
Summary
Predicted to enable RNA binding activity. Acts upstream of or within cardiac muscle cell development; regulation of RNA splicing; and skeletal muscle fiber development. Is expressed in several structures, including muscle; pectoral fin bud; segmental plate; skeletal muscle satellite cell; and tail bud. Orthologous to human RBFOX2 (RNA binding fox-1 homolog 2). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
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Genomic context

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Location:
chromosome: 6
Exon count:
16
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (295185..342217)
105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (278079..322320)

Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene G-protein coupled receptor 4-like Neighboring gene G-protein coupled receptor 35-like Neighboring gene retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit gamma-like Neighboring gene phosphodiesterase 6H, cGMP-specific, cone, gamma, paralog a

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. In vivo assessment of contractile strength distinguishes differential gene function in skeletal muscle of zebrafish larvae. Martin BL, et al. J Appl Physiol (1985), 2015 Oct 1. PMID 26251513, Free PMC Article
  2. Satellite-like cells contribute to pax7-dependent skeletal muscle repair in adult zebrafish. Berberoglu MA, et al. Dev Biol, 2017 Apr 15. PMID 28279710, Free PMC Article
  3. RBFox1-mediated RNA splicing regulates cardiac hypertrophy and heart failure. Gao C, et al. J Clin Invest, 2016 Jan. PMID 26619120, Free PMC Article
  4. RNA splicing regulated by RBFOX1 is essential for cardiac function in zebrafish. Frese KS, et al. J Cell Sci, 2015 Aug 15. PMID 26116573, Free PMC Article
  5. Conserved functions of RNA-binding proteins in muscle. Nikonova E, et al. Int J Biochem Cell Biol, 2019 May. PMID 30818081

See all (13) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Data show that Rbfox1l and Rbfox2 have unique and redundant roles in splicing regulation.
    Title: Rbfox-regulated alternative splicing is critical for zebrafish cardiac and skeletal muscle functions.
Submit: New GeneRIF Correction

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 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 cardiac muscle cell development IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within left ventricular cardiac muscle tissue morphogenesis 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 nervous system development IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within regulation of RNA splicing IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within regulation of RNA splicing IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within regulation of RNA splicing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulation of alternative mRNA splicing, via spliceosome IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within skeletal muscle fiber development IGI
Inferred from Genetic Interaction
more info
 PubMed 
Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
RNA binding protein fox-1 homolog 2; RNA binding protein, fox-1 homolog (C. elegans) 2
Names
RNA binding motif protein 9
RNA binding protein, fox-1 homolog 2

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_214746.1 → NP_999911.1  RNA binding protein fox-1 homolog 2

    See identical proteins and their annotated locations for NP_999911.1

    Status: PROVISIONAL

    Source sequence(s)
    BC068360
    UniProtKB/TrEMBL
    Q6NV06
    Related
    ENSDARP00000068474.4, ENSDART00000073985.5
    Conserved Domains (3) summary
    COG0724
    Location:1 → 66
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    pfam12414
    Location:101 → 202
    Fox-1_C; Calcitonin gene-related peptide regulator C terminal
    cl17169
    Location:1 → 57
    RRM_SF; RNA recognition motif (RRM) superfamily

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007117.7 Reference GRCz11 Primary Assembly

    Range
    295185..342217
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021476830.1 → XP_021332505.1  RNA binding protein, fox-1 homolog (C. elegans) 2 isoform X5

    UniProtKB/TrEMBL
    A0A8M9QFB1
    Conserved Domains (1) summary
    cd12407
    Location:166 → 241
    RRM_FOX1_like; RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins

  2. XM_021476829.1 → XP_021332504.1  RNA binding protein, fox-1 homolog (C. elegans) 2 isoform X4

    UniProtKB/TrEMBL
    A0A8M9Q615
    Conserved Domains (2) summary
    cd12407
    Location:166 → 241
    RRM_FOX1_like; RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins
    pfam12414
    Location:285 → 350
    Fox-1_C; Calcitonin gene-related peptide regulator C terminal

  3. XM_021476827.1 → XP_021332502.1  RNA binding protein, fox-1 homolog (C. elegans) 2 isoform X2

    UniProtKB/TrEMBL
    A0A8M9PM01
    Conserved Domains (2) summary
    cd12407
    Location:166 → 241
    RRM_FOX1_like; RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins
    pfam12414
    Location:285 → 386
    Fox-1_C; Calcitonin gene-related peptide regulator C terminal

  4. XM_021476826.1 → XP_021332501.1  RNA binding protein, fox-1 homolog (C. elegans) 2 isoform X1

    UniProtKB/TrEMBL
    A0A8M9QA95
    Conserved Domains (2) summary
    cd12407
    Location:166 → 241
    RRM_FOX1_like; RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins
    pfam12414
    Location:285 → 386
    Fox-1_C; Calcitonin gene-related peptide regulator C terminal

  5. XM_021476828.1 → XP_021332503.1  RNA binding protein, fox-1 homolog (C. elegans) 2 isoform X3

    UniProtKB/TrEMBL
    A0A8M9PZL7
    Conserved Domains (2) summary
    cd12407
    Location:133 → 208
    RRM_FOX1_like; RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins
    pfam12414
    Location:252 → 353
    Fox-1_C; Calcitonin gene-related peptide regulator C terminal

RNA

  1. XR_002458997.1 RNA Sequence

  2. XR_002458996.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version

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