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    rbfox1l RNA binding fox-1 homolog 1, like [ Danio rerio (zebrafish) ]

    Gene ID: 407613, updated on 14-Dec-2024

    Summary

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    Official Symbol
    rbfox1lprovided by ZNC
    Official Full Name
    RNA binding fox-1 homolog 1, likeprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040923-2
    See related
    Ensembl:ENSDARG00000021184 AllianceGenome:ZFIN:ZDB-GENE-040923-2
    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
    Fox-1; fox1l; a2bp1l; zeh0082; hm:zeh0082
    Summary
    Enables RNA binding activity. Acts upstream of or within several processes, including RNA splicing; regulation of RNA splicing; and striated muscle cell development. Located in nucleus. Is expressed in several structures, including cardiovascular system; fin bud; musculature system; paraxial mesoderm; and skeletal muscle satellite cell. [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See rbfox1l in Genome Data Viewer
    Location:
    chromosome: 16
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 16 NC_007127.7 (31900131..31919281, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 16 NC_007127.6 (31944541..31963693, complement)

    Chromosome 16 - NC_007127.7Genomic Context describing neighboring genes Neighboring gene atrophin 1 Neighboring gene uncharacterized LOC110437989 Neighboring gene uncharacterized LOC137487922 Neighboring gene RAP1 GTPase activating protein-like Neighboring gene ribosomal protein S9 Neighboring gene uncharacterized LOC108179621

    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. A vertebrate RNA-binding protein Fox-1 regulates tissue-specific splicing via the pentanucleotide GCAUG. Jin Y, et al. EMBO J, 2003 Feb 17. PMID 12574126, Free PMC Article
    3. 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
    4. Pleiotropic contribution of rbfox1 to psychiatric and neurodevelopmental phenotypes in two zebrafish models. Antón-Galindo E, et al. Transl Psychiatry, 2024 Feb 19. PMID 38374212, Free PMC Article
    5. RBFox1-mediated RNA splicing regulates cardiac hypertrophy and heart failure. Gao C, et al. J Clin Invest, 2016 Jan. PMID 26619120, Free PMC Article

    See all (19) 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

    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 ZFIN

    Function Evidence Code Pubs
    enables RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    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 IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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 heart process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in nervous system development IBA
    Inferred from Biological aspect of Ancestor
    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 IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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 
    involved_in regulation of alternative mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    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
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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 1-like
    Names
    RNA-binding protein
    ZFmu1A11s
    ataxin 2-binding protein 1-like
    fox-1 homolog-like protein 1

    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_214775.1 → NP_999940.1  RNA binding protein fox-1 homolog 1-like

      See identical proteins and their annotated locations for NP_999940.1

      Status: PROVISIONAL

      Source sequence(s)
      AB074763
      UniProtKB/Swiss-Prot
      Q7ZT82
      UniProtKB/TrEMBL
      B3DK66
      Related
      ENSDARP00000016637.7, ENSDART00000027364.8
      Conserved Domains (3) summary
      COG0724
      Location:143 → 237
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12407
      Location:147 → 222
      RRM_FOX1_like; RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins
      pfam12414
      Location:257 → 353
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal

    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_007127.7 Reference GRCz11 Primary Assembly

      Range
      31900131..31919281 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005158173.5 → XP_005158230.1  RNA binding protein fox-1 homolog 1-like isoform X1

      UniProtKB/TrEMBL
      A0A8M2B4J5
      Conserved Domains (3) summary
      COG0724
      Location:131 → 225
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12407
      Location:135 → 210
      RRM_FOX1_like; RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins
      pfam12414
      Location:245 → 341
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394963.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      158466..176806 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q7ZT82.1 GenPept UniProtKB/Swiss-Prot:Q7ZT82

    Gene LinkOut

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