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    Rbfox1 RNA binding fox-1 homolog 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 302920, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Rbfox1provided by RGD
    Official Full Name
    RNA binding fox-1 homolog 1provided by RGD
    Primary source
    RGD:1311210
    See related
    EnsemblRapid:ENSRNOG00000002827 AllianceGenome:RGD:1311210
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    A2bp1
    Summary
    The Fox-1 family of RNA-binding proteins is evolutionarily conserved, and regulates tissue-specific alternative splicing in metazoa. Fox-1 recognizes a (U)GCAUG stretch in regulated exons or in flanking introns. [provided by RefSeq, Nov 2011]
    Expression
    Biased expression in Muscle (RPKM 330.6), Brain (RPKM 226.2) and 1 other tissue See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rbfox1 in Genome Data Viewer
    Location:
    10q12
    Exon count:
    28
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (8658809..10754648, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (8152198..10248120, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (8312961..10437778, complement)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene U6 spliceosomal RNA Neighboring gene Histone deacetylase 1, pseudogene 9 Neighboring gene uncharacterized LOC134480752 Neighboring gene ribosomal protein L11, pseudogene 1 Neighboring gene uncharacterized LOC134480751 Neighboring gene small nucleolar RNA SNORA48 Neighboring gene RNA binding motif protein 25-like 1

    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. Rbfox-1 contributes to CaMKIIα expression and intracerebral hemorrhage-induced secondary brain injury via blocking micro-RNA-124. Shen F, et al. J Cereb Blood Flow Metab, 2021 Mar. PMID 32248729, Free PMC Article
    2. Biochemical and morphological characterization of A2BP1 in neuronal tissue. Hamada N, et al. J Neurosci Res, 2013 Oct. PMID 23918472
    3. Evaluation of A2BP1 as an obesity gene. Ma L, et al. Diabetes, 2010 Nov. PMID 20724578, Free PMC Article
    4. Characterization of Ca(V)1.2 exon 33 heterozygous knockout mice and negative correlation between Rbfox1 and Ca(V)1.2 exon 33 expressions in human heart failure. Wang J, et al. Channels (Austin), 2018 Jan 1. PMID 28949795, Free PMC Article
    5. A novel protein with RNA-binding motifs interacts with ataxin-2. Shibata H, et al. Hum Mol Genet, 2000 May 22. PMID 10814712

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Rbfox-1 contributes to CaMKIIalpha expression and intracerebral hemorrhage-induced secondary brain injury via blocking micro-RNA-124.
      Title: Rbfox-1 contributes to CaMKIIα expression and intracerebral hemorrhage-induced secondary brain injury via blocking micro-RNA-124.
    2. The results suggest that in neuronal tissues A2BP1 plays important roles, which are regulated in a spatiotemporal manner.
      Title: Biochemical and morphological characterization of A2BP1 in neuronal tissue.
    3. Association analysis suggests that variation in A2BP1 influences obesity.
      Title: Evaluation of A2BP1 as an obesity gene.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA 3'-UTR binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in 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 neuromuscular process controlling balance ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within regulation of skeletal muscle cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasmic stress granule ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear stress granule ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in trans-Golgi network ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    RNA binding protein fox-1 homolog 1
    Names
    RNA binding protein, fox-1 homolog 1
    ataxin 2 binding protein 1
    fox-1 homolog A

    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_001106974.2 → NP_001100444.2  RNA binding protein fox-1 homolog 1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A0A8I5ZL88
      Conserved Domains (3) summary
      COG0724
      Location:82 → 237
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12407
      Location:136 → 211
      RRM_FOX1_like; RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins
      pfam12414
      Location:272 → 361
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal

    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_086028.1 Reference GRCr8

      Range
      8658809..10754648 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039085817.2 → XP_038941745.1  RNA binding protein fox-1 homolog 1 isoform X4

      Conserved Domains (3) summary
      TIGR01661
      Location:123 → 324
      ELAV_HUD_SF; ELAV/HuD family splicing factor
      pfam12414
      Location:389 → 476
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cd12407
      Location:253 → 328
      RRM_FOX1_like; RNA recognition motif (RRM) found in vertebrate RNA binding protein fox-1 homologs and similar proteins

    2. XM_017597207.3 → XP_017452696.1  RNA binding protein fox-1 homolog 1 isoform X3

      Related
      ENSRNOP00000077105.2, ENSRNOT00000100843.3

    3. XM_017597209.3 → XP_017452698.1  RNA binding protein fox-1 homolog 1 isoform X5

    4. XM_063268861.1 → XP_063124931.1  RNA binding protein fox-1 homolog 1 isoform X11

    5. XM_063268872.1 → XP_063124942.1  RNA binding protein fox-1 homolog 1 isoform X23

    6. XM_063268884.1 → XP_063124954.1  RNA binding protein fox-1 homolog 1 isoform X37

    7. XM_063268892.1 → XP_063124962.1  RNA binding protein fox-1 homolog 1 isoform X45

    8. XM_063268874.1 → XP_063124944.1  RNA binding protein fox-1 homolog 1 isoform X26

      UniProtKB/TrEMBL
      A0A8I5ZK82

    9. XM_063268887.1 → XP_063124957.1  RNA binding protein fox-1 homolog 1 isoform X40

    10. XM_063268885.1 → XP_063124955.1  RNA binding protein fox-1 homolog 1 isoform X38

      Related
      ENSRNOP00000098601.2, ENSRNOT00000121049.2

    11. XM_063268893.1 → XP_063124963.1  RNA binding protein fox-1 homolog 1 isoform X46

    12. XM_063268886.1 → XP_063124956.1  RNA binding protein fox-1 homolog 1 isoform X39

    13. XM_063268877.1 → XP_063124947.1  RNA binding protein fox-1 homolog 1 isoform X29

    14. XM_063268881.1 → XP_063124951.1  RNA binding protein fox-1 homolog 1 isoform X34

    15. XM_063268869.1 → XP_063124939.1  RNA binding protein fox-1 homolog 1 isoform X17

      Related
      ENSRNOP00000098626.2, ENSRNOT00000121085.2

    16. XM_063268873.1 → XP_063124943.1  RNA binding protein fox-1 homolog 1 isoform X25

    17. XM_063268882.1 → XP_063124952.1  RNA binding protein fox-1 homolog 1 isoform X35

    18. XM_063268890.1 → XP_063124960.1  RNA binding protein fox-1 homolog 1 isoform X43

    19. XM_039085834.2 → XP_038941762.1  RNA binding protein fox-1 homolog 1 isoform X31

      UniProtKB/TrEMBL
      D3ZSL1
      Conserved Domains (3) summary
      pfam12414
      Location:245 → 335
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cd12407
      Location:136 → 211
      RRM_FOX1_like; RNA recognition motif (RRM) found in vertebrate RNA binding protein fox-1 homologs and similar proteins
      NF033875
      Location:31 → 220
      Agg_substance; LPXTG-anchored aggregation substance

    20. XM_063268880.1 → XP_063124950.1  RNA binding protein fox-1 homolog 1 isoform X33

    21. XM_006245774.5 → XP_006245836.1  RNA binding protein fox-1 homolog 1 isoform X21

      UniProtKB/TrEMBL
      A0A8I5ZL88
      Related
      ENSRNOP00000082950.2, ENSRNOT00000098537.3
      Conserved Domains (3) summary
      COG0724
      Location:82 → 237
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12407
      Location:136 → 211
      RRM_FOX1_like; RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins
      pfam12414
      Location:272 → 362
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal

    22. XM_063268875.1 → XP_063124945.1  RNA binding protein fox-1 homolog 1 isoform X27

      UniProtKB/TrEMBL
      A0A8I5ZW73

    23. XM_063268876.1 → XP_063124946.1  RNA binding protein fox-1 homolog 1 isoform X28

    24. XM_063268878.1 → XP_063124948.1  RNA binding protein fox-1 homolog 1 isoform X30

    25. XM_063268894.1 → XP_063124964.1  RNA binding protein fox-1 homolog 1 isoform X47

    26. XM_063268889.1 → XP_063124959.1  RNA binding protein fox-1 homolog 1 isoform X42

    27. XM_063268888.1 → XP_063124958.1  RNA binding protein fox-1 homolog 1 isoform X41

      Related
      ENSRNOP00000098596.1, ENSRNOT00000121044.2

    28. XM_063268868.1 → XP_063124938.1  RNA binding protein fox-1 homolog 1 isoform X16

      Related
      ENSRNOP00000098622.1, ENSRNOT00000121081.2

    29. XM_017597204.3 → XP_017452693.1  RNA binding protein fox-1 homolog 1 isoform X2

    30. XM_063268859.1 → XP_063124929.1  RNA binding protein fox-1 homolog 1 isoform X7

    31. XM_063268883.1 → XP_063124953.1  RNA binding protein fox-1 homolog 1 isoform X36

    32. XM_063268871.1 → XP_063124941.1  RNA binding protein fox-1 homolog 1 isoform X19

    33. XM_039085829.2 → XP_038941757.1  RNA binding protein fox-1 homolog 1 isoform X20

      Conserved Domains (3) summary
      pfam12414
      Location:249 → 335
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cd12407
      Location:140 → 215
      RRM_FOX1_like; RNA recognition motif (RRM) found in vertebrate RNA binding protein fox-1 homologs and similar proteins
      NF033875
      Location:35 → 224
      Agg_substance; LPXTG-anchored aggregation substance

    34. XM_039085822.2 → XP_038941750.1  RNA binding protein fox-1 homolog 1 isoform X9

      Related
      ENSRNOP00000098630.2, ENSRNOT00000121089.2

    35. XM_039085833.2 → XP_038941761.1  RNA binding protein fox-1 homolog 1 isoform X24

      UniProtKB/TrEMBL
      A0A0G2JYU0
      Conserved Domains (3) summary
      COG0724
      Location:86 → 241
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      pfam12414
      Location:276 → 365
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cd12407
      Location:140 → 215
      RRM_FOX1_like; RNA recognition motif (RRM) found in vertebrate RNA binding protein fox-1 homologs and similar proteins

    36. XM_017597211.3 → XP_017452700.1  RNA binding protein fox-1 homolog 1 isoform X10

      UniProtKB/TrEMBL
      A0A0G2JYU0

    37. XM_063268879.1 → XP_063124949.1  RNA binding protein fox-1 homolog 1 isoform X32

    38. XM_063268891.1 → XP_063124961.1  RNA binding protein fox-1 homolog 1 isoform X44

    39. XM_063268863.1 → XP_063124933.1  RNA binding protein fox-1 homolog 1 isoform X13

      Related
      ENSRNOP00000070788.3, ENSRNOT00000082332.4

    40. XM_039085809.2 → XP_038941737.1  RNA binding protein fox-1 homolog 1 isoform X1

      Conserved Domains (3) summary
      COG0724
      Location:199 → 354
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      pfam12414
      Location:389 → 476
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cd12407
      Location:253 → 328
      RRM_FOX1_like; RNA recognition motif (RRM) found in vertebrate RNA binding protein fox-1 homologs and similar proteins

    41. XM_063268865.1 → XP_063124935.1  RNA binding protein fox-1 homolog 1 isoform X15

    42. XM_063268858.1 → XP_063124928.1  RNA binding protein fox-1 homolog 1 isoform X6

    43. XM_063268867.1 → XP_063124937.1  RNA binding protein fox-1 homolog 1 isoform X15

    44. XM_063268866.1 → XP_063124936.1  RNA binding protein fox-1 homolog 1 isoform X15

    45. XM_063268870.1 → XP_063124940.1  RNA binding protein fox-1 homolog 1 isoform X18

    46. XM_063268860.1 → XP_063124930.1  RNA binding protein fox-1 homolog 1 isoform X8

    47. XM_039085830.2 → XP_038941758.1  RNA binding protein fox-1 homolog 1 isoform X22

      Conserved Domains (3) summary
      COG0724
      Location:82 → 170
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      pfam12414
      Location:241 → 328
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cl17169
      Location:136 → 175
      RRM_SF; RNA recognition motif (RRM) superfamily

    48. XM_063268864.1 → XP_063124934.1  RNA binding protein fox-1 homolog 1 isoform X14

    49. XM_063268862.1 → XP_063124932.1  RNA binding protein fox-1 homolog 1 isoform X12

    Nucleotide Protein Strain
    Heading Accession and Version

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