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    Rbfox2 RNA binding fox-1 homolog 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362950, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Rbfox2provided by RGD
    Official Full Name
    RNA binding fox-1 homolog 2provided by RGD
    Primary source
    RGD:1311838
    See related
    EnsemblRapid:ENSRNOG00000004688 AllianceGenome:RGD:1311838
    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
    Also known as
    Rbm9
    Summary
    Enables single-stranded RNA binding activity. Involved in several processes, including cellular response to peptide hormone stimulus; mRNA alternative polyadenylation; and regulation of gene expression. Located in cytoplasm and nucleus. Biomarker of hypertension. Human ortholog(s) of this gene implicated in congenital heart disease. Orthologous to human RBFOX2 (RNA binding fox-1 homolog 2). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Heart (RPKM 84.9), Brain (RPKM 74.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rbfox2 in Genome Data Viewer
    Location:
    7q34
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (110691230..110934901, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (108810627..109054420, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (118157093..118396733, complement)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134479932 Neighboring gene uncharacterized LOC134479935 Neighboring gene uncharacterized LOC134479934 Neighboring gene myoglobin Neighboring gene uncharacterized LOC120093818 Neighboring gene Apol9a-Apol7a readthrough

    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 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. Dysregulated Rbfox2 produces aberrant splicing of Ca(V)1.2 calcium channel in diabetes-induced cardiac hypertrophy. Li P, et al. Cardiovasc Diabetol, 2023 Jul 6. PMID 37415128, Free PMC Article
    2. De novo mutations in congenital heart disease with neurodevelopmental and other congenital anomalies. Homsy J, et al. Science, 2015 Dec 4. PMID 26785492, Free PMC Article
    3. Loss of RNA expression and allele-specific expression associated with congenital heart disease. McKean DM, et al. Nat Commun, 2016 Sep 27. PMID 27670201, Free PMC Article
    4. Novel Rbfox2 isoforms associated with alternative exon usage in rat cortex and suprachiasmatic nucleus. Partridge LMM, et al. Sci Rep, 2017 Aug 30. PMID 28855650, Free PMC Article
    5. RBFOX2 is critical for maintaining alternative polyadenylation patterns and mitochondrial health in rat myoblasts. Cao J, et al. Cell Rep, 2021 Nov 2. PMID 34731606, Free PMC Article

    See all (29) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Dysregulated Rbfox2 produces aberrant splicing of CaV1.2 calcium channel in diabetes-induced cardiac hypertrophy.
      Title: Dysregulated Rbfox2 produces aberrant splicing of Ca(V)1.2 calcium channel in diabetes-induced cardiac hypertrophy.
    2. RBFOX2 is critical for maintaining alternative polyadenylation patterns and mitochondrial health in rat myoblasts.
      Title: RBFOX2 is critical for maintaining alternative polyadenylation patterns and mitochondrial health in rat myoblasts.
    3. Rbfox2 mediates exon 11 inclusion in insulin receptor pre-mRNA splicing in hepatoma cells.
      Title: Rbfox2 mediates exon 11 inclusion in insulin receptor pre-mRNA splicing in hepatoma cells.
    4. Expression of Rbfox2 is essential for proper exon splicing of genes of the cGMP-PKG-Ca2+ pathway.
      Title: Genes of the cGMP-PKG-Ca(2+) signaling pathway are alternatively spliced in cardiomyopathy: Role of RBFOX2.
    5. Results demonstrated a distinct populations of Rbfox2 variants in the adult brain which is consistent with neuronal transcript diversity. Novel variants in PC12 cells is suggestive of a multiplicity of Rbfox2 transcript populations that may be a defining feature of individual cell types.
      Title: Novel Rbfox2 isoforms associated with alternative exon usage in rat cortex and suprachiasmatic nucleus.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC156775

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA-binding transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-binding transcription factor binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables mRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables single-stranded RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables transcription corepressor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription corepressor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cellular response to angiotensin IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in cellular response to endothelin IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in cellular response to hydrogen peroxide IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in cellular response to retinoic acid IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in dendrite morphogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within dendrite morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in estrogen receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in estrogen receptor signaling pathway ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in heart development IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in mRNA alternative polyadenylation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of DNA-templated transcription ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of membrane hyperpolarization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of mitochondrial depolarization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in nervous system development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nervous system development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in neuromuscular process controlling balance IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within neuromuscular process controlling balance ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of vasoconstriction IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in radial glia guided migration of Purkinje cell IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within radial glia guided migration of Purkinje cell 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
    		  
    involved_in regulation of alternative mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of alternative mRNA splicing, via spliceosome IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of alternative mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of alternative mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of definitive erythrocyte differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of definitive erythrocyte differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of mitochondrial gene expression IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    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
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    RNA binding protein fox-1 homolog 2
    Names
    RNA binding protein, fox-1 homolog 2
    RNA-binding motif protein 9
    RNA-binding protein 9
    RNA-binding protein FOX2
    fox-1 homolog B

    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_001079895.2 → NP_001073364.1  RNA binding protein fox-1 homolog 2 isoform 2

      See identical proteins and their annotated locations for NP_001073364.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/Swiss-Prot
      A1A5R1
      UniProtKB/TrEMBL
      A0A8I5XWK2
      Conserved Domains (3) summary
      COG0724
      Location:146 → 247
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12407
      Location:163 → 238
      RRM_FOX1_like; RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins
      pfam12414
      Location:307 → 404
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal

    2. NM_001414967.1 → NP_001401896.1  RNA binding protein fox-1 homolog 2 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007

    3. NM_001414968.1 → NP_001401897.1  RNA binding protein fox-1 homolog 2 isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      Related
      ENSRNOP00000070842.3, ENSRNOT00000090370.3

    4. NM_001414969.1 → NP_001401898.1  RNA binding protein fox-1 homolog 2 isoform 4

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/TrEMBL
      A0A249Y6E1

    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_086025.1 Reference GRCr8

      Range
      110691230..110934901 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063263894.1 → XP_063119964.1  RNA binding protein fox-1 homolog 2 isoform X23

    2. XM_063263886.1 → XP_063119956.1  RNA binding protein fox-1 homolog 2 isoform X14

    3. XM_063263892.1 → XP_063119962.1  RNA binding protein fox-1 homolog 2 isoform X21

    4. XM_063263885.1 → XP_063119955.1  RNA binding protein fox-1 homolog 2 isoform X13

    5. XM_063263884.1 → XP_063119954.1  RNA binding protein fox-1 homolog 2 isoform X12

    6. XM_006241843.5 → XP_006241905.1  RNA binding protein fox-1 homolog 2 isoform X29

      UniProtKB/TrEMBL
      A0A8I6A065
      Conserved Domains (3) summary
      COG0724
      Location:138 → 213
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      pfam12414
      Location:288 → 386
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cl17169
      Location:179 → 218
      RRM_SF; RNA recognition motif (RRM) superfamily

    7. XM_063263901.1 → XP_063119971.1  RNA binding protein fox-1 homolog 2 isoform X31

    8. XM_063263895.1 → XP_063119965.1  RNA binding protein fox-1 homolog 2 isoform X24

    9. XM_063263890.1 → XP_063119960.1  RNA binding protein fox-1 homolog 2 isoform X19

    10. XM_063263888.1 → XP_063119958.1  RNA binding protein fox-1 homolog 2 isoform X17

    11. XM_063263883.1 → XP_063119953.1  RNA binding protein fox-1 homolog 2 isoform X9

    12. XM_006241837.5 → XP_006241899.1  RNA binding protein fox-1 homolog 2 isoform X10

      UniProtKB/TrEMBL
      A0A8I5XWK2
      Conserved Domains (2) summary
      pfam12414
      Location:319 → 416
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cd12407
      Location:179 → 254
      RRM_FOX1_like; RNA recognition motif (RRM) found in vertebrate RNA binding protein fox-1 homologs and similar proteins

    13. XM_006241832.5 → XP_006241894.1  RNA binding protein fox-1 homolog 2 isoform X5

      Conserved Domains (2) summary
      pfam12414
      Location:319 → 376
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cd12407
      Location:179 → 254
      RRM_FOX1_like; RNA recognition motif (RRM) found in vertebrate RNA binding protein fox-1 homologs and similar proteins

    14. XM_063263879.1 → XP_063119949.1  RNA binding protein fox-1 homolog 2 isoform X2

    15. XM_063263900.1 → XP_063119970.1  RNA binding protein fox-1 homolog 2 isoform X30

    16. XM_063263891.1 → XP_063119961.1  RNA binding protein fox-1 homolog 2 isoform X20

    17. XM_039079562.2 → XP_038935490.1  RNA binding protein fox-1 homolog 2 isoform X11

      UniProtKB/TrEMBL
      A0A8I5XWK2
      Conserved Domains (3) summary
      TIGR01661
      Location:37 → 250
      ELAV_HUD_SF; ELAV/HuD family splicing factor
      pfam12414
      Location:319 → 416
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cd12407
      Location:180 → 254
      RRM_FOX1_like; RNA recognition motif (RRM) found in vertebrate RNA binding protein fox-1 homologs and similar proteins

    18. XM_063263880.1 → XP_063119950.1  RNA binding protein fox-1 homolog 2 isoform X3

    19. XM_063263898.1 → XP_063119968.1  RNA binding protein fox-1 homolog 2 isoform X27

    20. XM_063263899.1 → XP_063119969.1  RNA binding protein fox-1 homolog 2 isoform X28

    21. XM_063263893.1 → XP_063119963.1  RNA binding protein fox-1 homolog 2 isoform X22

    22. XM_063263889.1 → XP_063119959.1  RNA binding protein fox-1 homolog 2 isoform X18

    23. XM_006241839.5 → XP_006241901.1  RNA binding protein fox-1 homolog 2 isoform X16

      See identical proteins and their annotated locations for XP_006241901.1

      UniProtKB/TrEMBL
      A0A8I6AED5, A6HSF3
      Related
      ENSRNOP00000090738.1, ENSRNOT00000098506.2
      Conserved Domains (3) summary
      TIGR01661
      Location:37 → 251
      ELAV_HUD_SF; ELAV/HuD family splicing factor
      pfam12414
      Location:320 → 368
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cd12407
      Location:180 → 255
      RRM_FOX1_like; RNA recognition motif (RRM) found in vertebrate RNA binding protein fox-1 homologs and similar proteins

    24. XM_006241835.5 → XP_006241897.1  RNA binding protein fox-1 homolog 2 isoform X8

      UniProtKB/TrEMBL
      A0A8I5XWK2
      Related
      ENSRNOP00000063462.2, ENSRNOT00000066431.3
      Conserved Domains (3) summary
      TIGR01661
      Location:37 → 251
      ELAV_HUD_SF; ELAV/HuD family splicing factor
      pfam12414
      Location:320 → 418
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cd12407
      Location:180 → 255
      RRM_FOX1_like; RNA recognition motif (RRM) found in vertebrate RNA binding protein fox-1 homologs and similar proteins

    25. XM_006241831.5 → XP_006241893.1  RNA binding protein fox-1 homolog 2 isoform X4

      Conserved Domains (3) summary
      COG0724
      Location:163 → 264
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12407
      Location:180 → 255
      RRM_FOX1_like; RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins
      pfam12414
      Location:320 → 377
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal

    26. XM_063263887.1 → XP_063119957.1  RNA binding protein fox-1 homolog 2 isoform X15

    27. XM_063263881.1 → XP_063119951.1  RNA binding protein fox-1 homolog 2 isoform X6

    28. XM_063263882.1 → XP_063119952.1  RNA binding protein fox-1 homolog 2 isoform X7

    29. XM_063263878.1 → XP_063119948.1  RNA binding protein fox-1 homolog 2 isoform X1

    30. XM_063263897.1 → XP_063119967.1  RNA binding protein fox-1 homolog 2 isoform X26

    31. XM_063263908.1 → XP_063119978.1  RNA binding protein fox-1 homolog 2 isoform X39

    32. XM_063263913.1 → XP_063119983.1  RNA binding protein fox-1 homolog 2 isoform X44

    33. XM_063263896.1 → XP_063119966.1  RNA binding protein fox-1 homolog 2 isoform X25

    34. XM_063263904.1 → XP_063119974.1  RNA binding protein fox-1 homolog 2 isoform X34

    35. XM_063263909.1 → XP_063119979.1  RNA binding protein fox-1 homolog 2 isoform X40

    36. XM_063263906.1 → XP_063119976.1  RNA binding protein fox-1 homolog 2 isoform X36

    37. XM_063263902.1 → XP_063119972.1  RNA binding protein fox-1 homolog 2 isoform X32

    38. XM_063263915.1 → XP_063119985.1  RNA binding protein fox-1 homolog 2 isoform X47

    39. XM_063263911.1 → XP_063119981.1  RNA binding protein fox-1 homolog 2 isoform X42

      UniProtKB/TrEMBL
      A0A0G2JYY7

    40. XM_063263903.1 → XP_063119973.1  RNA binding protein fox-1 homolog 2 isoform X33

    41. XM_063263912.1 → XP_063119982.1  RNA binding protein fox-1 homolog 2 isoform X43

    42. XM_063263907.1 → XP_063119977.1  RNA binding protein fox-1 homolog 2 isoform X38

    43. XM_039079566.2 → XP_038935494.1  RNA binding protein fox-1 homolog 2 isoform X45

      UniProtKB/TrEMBL
      A0A8I5XWK2, A6HSF4
      Conserved Domains (3) summary
      TIGR01645
      Location:96 → 248
      half-pint; poly-U binding splicing factor, half-pint family
      pfam12414
      Location:252 → 349
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cd12407
      Location:112 → 187
      RRM_FOX1_like; RNA recognition motif (RRM) found in vertebrate RNA binding protein fox-1 homologs and similar proteins

    44. XM_063263914.1 → XP_063119984.1  RNA binding protein fox-1 homolog 2 isoform X46

    45. XM_063263910.1 → XP_063119980.1  RNA binding protein fox-1 homolog 2 isoform X41

      Related
      ENSRNOP00000081980.2, ENSRNOT00000113975.2

    46. XM_006241847.5 → XP_006241909.1  RNA binding protein fox-1 homolog 2 isoform X37

      UniProtKB/TrEMBL
      A0A8I5ZML9
      Conserved Domains (3) summary
      COG0724
      Location:95 → 196
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12407
      Location:112 → 187
      RRM_FOX1_like; RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins
      pfam12414
      Location:252 → 309
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal

    47. XM_063263905.1 → XP_063119975.1  RNA binding protein fox-1 homolog 2 isoform X35

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A1A5R1.1 GenPept UniProtKB/Swiss-Prot:A1A5R1

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