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    Rbfox3 RNA binding fox-1 homolog 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 287847, updated on 6-Jun-2024

    Summary

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    Official Symbol
    Rbfox3provided by RGD
    Official Full Name
    RNA binding fox-1 homolog 3provided by RGD
    Primary source
    RGD:1560070
    See related
    Ensembl:ENSRNOG00000003386 AllianceGenome:RGD:1560070
    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
    Neun; Hrnbp3; RGD1560070
    Summary
    Predicted to enable DNA binding activity and mRNA binding activity. Predicted to be involved in nervous system development and regulation of alternative mRNA splicing, via spliceosome. Predicted to be located in perikaryon. Predicted to be active in cytoplasm and nucleus. Orthologous to human RBFOX3 (RNA binding fox-1 homolog 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Brain (RPKM 95.9) and Uterus (RPKM 6.3) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rbfox3 in Genome Data Viewer
    Location:
    10q32.3
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (104218940..104655863, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (103720355..104157277, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (107517916..107850764, complement)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene C1q and TNF related 1 Neighboring gene endo-beta-N-acetylglucosaminidase Neighboring gene uncharacterized LOC134480911 Neighboring gene signal recognition particle 19 kDa protein-like Neighboring gene uncharacterized LOC134480909 Neighboring gene uncharacterized LOC134480912 Neighboring gene uncharacterized LOC134480726 Neighboring gene ectonucleotide pyrophosphatase/phosphodiesterase 7 Neighboring gene chromobox 2

    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. Subcellular localization of neuronal nuclei (NeuN) antigen in size and calcitonin gene-related peptide (CGRP) populations of dorsal root ganglion (DRG) neurons during acute peripheral inflammation. Anderson MB, et al. Neurosci Lett, 2021 Aug 24. PMID 34146639, Free PMC Article
    2. [CYTOPLASMIC LOCALIZATION OF NEUN/Fox-3 NUCLEAR PROTEIN IN THE PANCREATIC CELLS]. Korzhevskiy DE, et al. Morfologiia, 2015. PMID 26987225
    3. NeuN/Fox-3 is an intrinsic component of the neuronal nuclear matrix. Dent MA, et al. FEBS Lett, 2010 Jul 2. PMID 20452351
    4. NeuN is not a reliable marker of dopamine neurons in rat substantia nigra. Cannon JR, et al. Neurosci Lett, 2009 Oct 16. PMID 19682546
    5. [EXPRESSION OF DOUBLECORTIN AND NeuN IN THE DEVELOPING CEREBELLAR NEURONS IN RAT]. Zimatkin SM, et al. Morfologiia, 2016. PMID 27487661

    See all (26) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Subcellular localization of neuronal nuclei (NeuN) antigen in size and calcitonin gene-related peptide (CGRP) populations of dorsal root ganglion (DRG) neurons during acute peripheral inflammation.
      Title: Subcellular localization of neuronal nuclei (NeuN) antigen in size and calcitonin gene-related peptide (CGRP) populations of dorsal root ganglion (DRG) neurons during acute peripheral inflammation.
    2. EXPRESSION OF DOUBLECORTIN AND NeuN IN THE DEVELOPING CEREBELLAR NEURONS IN RAT
      Title: [EXPRESSION OF DOUBLECORTIN AND NeuN IN THE DEVELOPING CEREBELLAR NEURONS IN RAT].
    3. the presence of NeuN protein in the secretory epithelial cells of the exocrine part of this organ. The protein was located in the apical part of the cytoplasm slightly below the zone of zymogen granules.
      Title: [CYTOPLASMIC LOCALIZATION OF NEUN/Fox-3 NUCLEAR PROTEIN IN THE PANCREATIC CELLS].
    4. Hippocampal glucose uptake defects correlate with NeuN immunoreactivity in the latent phase and GFAP immunoreactivity in the chronic phase.
      Title: FDG-PET and NeuN-GFAP immunohistochemistry of hippocampus at different phases of the pilocarpine model of temporal lobe epilepsy.
    5. Data provide evidence that NeuN/Fox-3 is an intrinsic component of the neuronal nuclear matrix and a reliable marker of nuclear speckles in neurons.
      Title: NeuN/Fox-3 is an intrinsic component of the neuronal nuclear matrix.
    6. NeuN expression level in the rat substantia nigra was highly variable, with many faintly stained cells.
      Title: NeuN is not a reliable marker of dopamine neurons in rat substantia nigra.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA 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
    		  
    involved_in regulation of alternative mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in neuronal cell body 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 perikaryon ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    RNA binding protein fox-1 homolog 3
    Names
    RNA binding protein, fox-1 homolog 3
    fox-1 homolog C
    hexaribonucleotide binding protein 3
    neuronal nuclei

    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_001134498.4 → NP_001127970.1  RNA binding protein fox-1 homolog 3 isoform 2

      See identical proteins and their annotated locations for NP_001127970.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A6HL62, A6HL63, D4A2H6
      Related
      ENSRNOP00000004524.4, ENSRNOT00000004524.6
      Conserved Domains (3) summary
      TIGR01661
      Location:25 → 170
      ELAV_HUD_SF; ELAV/HuD family splicing factor
      pfam12414
      Location:208 → 346
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cd12407
      Location:99 → 174
      RRM_FOX1_like; RNA recognition motif (RRM) found in vertebrate RNA binding protein fox-1 homologs and similar proteins

    2. NM_001413230.2 → NP_001400159.1  RNA binding protein fox-1 homolog 3 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A6HL62
      Related
      ENSRNOP00000091761.1, ENSRNOT00000120132.1

    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
      104218940..104655863 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039085684.2 → XP_038941612.1  RNA binding protein fox-1 homolog 3 isoform X9

      UniProtKB/TrEMBL
      A6HL62
      Conserved Domains (3) summary
      TIGR01661
      Location:71 → 216
      ELAV_HUD_SF; ELAV/HuD family splicing factor
      pfam12414
      Location:254 → 345
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cd12407
      Location:145 → 220
      RRM_FOX1_like; RNA recognition motif (RRM) found in vertebrate RNA binding protein fox-1 homologs and similar proteins

    2. XM_039085679.2 → XP_038941607.1  RNA binding protein fox-1 homolog 3 isoform X5

      Conserved Domains (3) summary
      TIGR01661
      Location:71 → 216
      ELAV_HUD_SF; ELAV/HuD family splicing factor
      pfam12414
      Location:254 → 392
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cd12407
      Location:145 → 220
      RRM_FOX1_like; RNA recognition motif (RRM) found in vertebrate RNA binding protein fox-1 homologs and similar proteins

    3. XM_039085683.2 → XP_038941611.1  RNA binding protein fox-1 homolog 3 isoform X8

      UniProtKB/TrEMBL
      A6HL62
      Conserved Domains (3) summary
      TIGR01661
      Location:71 → 215
      ELAV_HUD_SF; ELAV/HuD family splicing factor
      pfam12414
      Location:253 → 344
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cd12407
      Location:144 → 219
      RRM_FOX1_like; RNA recognition motif (RRM) found in vertebrate RNA binding protein fox-1 homologs and similar proteins

    4. XM_039085678.2 → XP_038941606.1  RNA binding protein fox-1 homolog 3 isoform X4

      Conserved Domains (3) summary
      TIGR01661
      Location:71 → 215
      ELAV_HUD_SF; ELAV/HuD family splicing factor
      pfam12414
      Location:253 → 391
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cd12407
      Location:144 → 219
      RRM_FOX1_like; RNA recognition motif (RRM) found in vertebrate RNA binding protein fox-1 homologs and similar proteins

    5. XM_039085682.2 → XP_038941610.1  RNA binding protein fox-1 homolog 3 isoform X7

      UniProtKB/TrEMBL
      A6HL62
      Conserved Domains (3) summary
      TIGR01661
      Location:71 → 216
      ELAV_HUD_SF; ELAV/HuD family splicing factor
      pfam12414
      Location:254 → 345
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cd12407
      Location:145 → 220
      RRM_FOX1_like; RNA recognition motif (RRM) found in vertebrate RNA binding protein fox-1 homologs and similar proteins

    6. XM_039085677.2 → XP_038941605.1  RNA binding protein fox-1 homolog 3 isoform X3

      Conserved Domains (3) summary
      TIGR01661
      Location:71 → 216
      ELAV_HUD_SF; ELAV/HuD family splicing factor
      pfam12414
      Location:254 → 392
      Fox-1_C; Calcitonin gene-related peptide regulator C terminal
      cd12407
      Location:145 → 220
      RRM_FOX1_like; RNA recognition motif (RRM) found in vertebrate RNA binding protein fox-1 homologs and similar proteins

    7. XM_063268786.1 → XP_063124856.1  RNA binding protein fox-1 homolog 3 isoform X6

    8. XM_063268787.1 → XP_063124857.1  RNA binding protein fox-1 homolog 3 isoform X6

    9. XM_063268785.1 → XP_063124855.1  RNA binding protein fox-1 homolog 3 isoform X6

    10. XM_063268784.1 → XP_063124854.1  RNA binding protein fox-1 homolog 3 isoform X2

    11. XM_063268783.1 → XP_063124853.1  RNA binding protein fox-1 homolog 3 isoform X1

    RNA

    1. XR_010055159.1 RNA Sequence

    2. XR_010055160.1 RNA Sequence

    3. XR_010055161.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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