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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 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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