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

Gene ID: 287847, updated on 2-Nov-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
EnsemblRapid: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. Biomarker of brain infarction and middle cerebral artery infarction. Orthologous to human RBFOX3 (RNA binding fox-1 homolog 3). [provided by Alliance of Genome Resources, Nov 2024]
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 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 is not a reliable marker of dopamine neurons in rat substantia nigra. Cannon JR, et al. Neurosci Lett, 2009 Oct 16. PMID 19682546
  4. NeuN/Fox-3 is an intrinsic component of the neuronal nuclear matrix. Dent MA, et al. FEBS Lett, 2010 Jul 2. PMID 20452351
  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, ENSRNOT00000004524.7
    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

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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