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    Celf6 CUGBP, Elav-like family member 6 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 300758, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Celf6provided by RGD
    Official Full Name
    CUGBP, Elav-like family member 6provided by RGD
    Primary source
    RGD:1310451
    See related
    EnsemblRapid:ENSRNOG00000052224 AllianceGenome:RGD:1310451
    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
    Brunol6
    Summary
    Predicted to enable mRNA binding activity. Predicted to be involved in mRNA splice site recognition and regulation of alternative mRNA splicing, via spliceosome. Predicted to act upstream of or within serotonergic synaptic transmission and vocalization behavior. Predicted to be located in synapse. Predicted to be part of ribonucleoprotein complex. Predicted to be active in cytoplasm and nucleus. Orthologous to human CELF6 (CUGBP Elav-like family member 6). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 26.9), Testes (RPKM 12.4) and 1 other tissue See more
    Orthologs
    human mouse all
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    Genomic context

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    See Celf6 in Genome Data Viewer
    Location:
    8q24
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (68870902..68901863)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (59975095..60006060)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (64364491..64428452)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene transmembrane protein 202 Neighboring gene small nucleolar RNA SNORA40 Neighboring gene hexosaminidase subunit alpha Neighboring gene poly (ADP-ribose) polymerase family, member 6 Neighboring gene U4 spliceosomal RNA Neighboring gene pyruvate kinase M1/2

    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. CELF6, a member of the CELF family of RNA-binding proteins, regulates muscle-specific splicing enhancer-dependent alternative splicing. Ladd AN, et al. J Biol Chem, 2004 Apr 23. PMID 14761971
    2. The disruption of Celf6, a gene identified by translational profiling of serotonergic neurons, results in autism-related behaviors. Dougherty JD, et al. J Neurosci, 2013 Feb 13. PMID 23407934, Free PMC Article
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in mRNA splice site recognition 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
    		  
    involved_in regulation of alternative mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within synaptic transmission, serotonergic ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within vocalization behavior 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
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of ribonucleoprotein complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in synapse IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    CUGBP Elav-like family member 6
    Names
    CUG-BP- and ETR-3-like factor 6
    NP_001100297.1
    NP_001400458.1
    XP_008764451.1
    XP_008764452.1
    XP_038937024.1
    XP_038937025.1
    XP_038937026.1
    XP_038937028.1
    XP_038937029.1
    XP_063121201.1
    XP_063121202.1

    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_001106827.4 → NP_001100297.1  CUGBP Elav-like family member 6 isoform 2

      See identical proteins and their annotated locations for NP_001100297.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      A0A8I5ZT14, A6J528
      Conserved Domains (4) summary
      cd12632
      Location:41 → 127
      RRM1_CELF3_4_5_6; RNA recognition motif 1 in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
      cd12635
      Location:133 → 213
      RRM2_CELF3_4_5_6; RNA recognition motif 2 in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
      cd12639
      Location:370 → 448
      RRM3_CELF3_4_5_6; RNA recognition motif 2 in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
      TIGR01661
      Location:48 → 455
      ELAV_HUD_SF; ELAV/HuD family splicing factor

    2. NM_001413529.2 → NP_001400458.1  CUGBP Elav-like family member 6 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      A0A8I5ZT14, A0A8I6GE07
      Related
      ENSRNOP00000085578.1, ENSRNOT00000096773.2

    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_086026.1 Reference GRCr8

      Range
      68870902..68901863
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039081096.2 → XP_038937024.1  CUGBP Elav-like family member 6 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZT14
      Conserved Domains (4) summary
      cd12639
      Location:391 → 469
      RRM3_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
      TIGR01622
      Location:44 → 388
      SF-CC1; splicing factor, CC1-like family
      cd12632
      Location:41 → 127
      RRM1_CELF3_4_5_6; RNA recognition motif 1 (RRM1) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
      cd12635
      Location:133 → 213
      RRM2_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins

    2. XM_008766230.4 → XP_008764452.1  CUGBP Elav-like family member 6 isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZT14, A0A8I5ZUH7
      Related
      ENSRNOP00000081165.1, ENSRNOT00000100836.2
      Conserved Domains (4) summary
      cd12632
      Location:41 → 127
      RRM1_CELF3_4_5_6; RNA recognition motif 1 in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
      cd12635
      Location:133 → 213
      RRM2_CELF3_4_5_6; RNA recognition motif 2 in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
      cd12639
      Location:344 → 422
      RRM3_CELF3_4_5_6; RNA recognition motif 2 in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
      TIGR01661
      Location:48 → 429
      ELAV_HUD_SF; ELAV/HuD family splicing factor

    3. XM_008766229.4 → XP_008764451.1  CUGBP Elav-like family member 6 isoform X2

      UniProtKB/TrEMBL
      A0A8I5ZT14, D4ABS9
      Related
      ENSRNOP00000070706.2, ENSRNOT00000082840.3
      Conserved Domains (4) summary
      cd12632
      Location:41 → 127
      RRM1_CELF3_4_5_6; RNA recognition motif 1 in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
      cd12635
      Location:133 → 213
      RRM2_CELF3_4_5_6; RNA recognition motif 2 in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
      cd12639
      Location:371 → 449
      RRM3_CELF3_4_5_6; RNA recognition motif 2 in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
      TIGR01661
      Location:48 → 456
      ELAV_HUD_SF; ELAV/HuD family splicing factor

    4. XM_039081097.2 → XP_038937025.1  CUGBP Elav-like family member 6 isoform X4

      Conserved Domains (3) summary
      TIGR01628
      Location:32 → 275
      PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
      cd12639
      Location:277 → 355
      RRM3_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
      cd12635
      Location:18 → 98
      RRM2_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins

    5. XM_039081098.2 → XP_038937026.1  CUGBP Elav-like family member 6 isoform X4

      Conserved Domains (3) summary
      TIGR01628
      Location:32 → 275
      PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
      cd12639
      Location:277 → 355
      RRM3_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
      cd12635
      Location:18 → 98
      RRM2_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins

    6. XM_063265132.1 → XP_063121202.1  CUGBP Elav-like family member 6 isoform X7

    7. XM_039081100.2 → XP_038937028.1  CUGBP Elav-like family member 6 isoform X4

      Conserved Domains (3) summary
      TIGR01628
      Location:32 → 275
      PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
      cd12639
      Location:277 → 355
      RRM3_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
      cd12635
      Location:18 → 98
      RRM2_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins

    8. XM_063265131.1 → XP_063121201.1  CUGBP Elav-like family member 6 isoform X5

    9. XM_039081101.2 → XP_038937029.1  CUGBP Elav-like family member 6 isoform X6

      Conserved Domains (3) summary
      TIGR01628
      Location:8 → 251
      PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
      cd12639
      Location:253 → 331
      RRM3_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
      cd12635
      Location:1 → 74
      RRM2_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
    Nucleotide Protein Strain
    Heading Accession and Version

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