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    Crnkl1 crooked neck pre-mRNA splicing factor 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 100910202, updated on 28-Oct-2024

    Summary

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    Symbol
    Crnkl1provided by RGD
    Full Name
    crooked neck pre-mRNA splicing factor 1provided by RGD
    Primary source
    RGD:620507
    See related
    EnsemblRapid:ENSRNOG00000010587 AllianceGenome:RGD:620507
    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
    Crn
    Summary
    Predicted to enable RNA binding activity. Involved in cellular response to brain-derived neurotrophic factor stimulus; cellular response to leukemia inhibitory factor; and cerebral cortex development. Predicted to be located in nucleus. Predicted to be part of Prp19 complex; U2-type catalytic step 2 spliceosome; and post-mRNA release spliceosomal complex. Human ortholog(s) of this gene implicated in basal cell carcinoma. Orthologous to human CRNKL1 (crooked neck pre-mRNA splicing factor 1). [provided by Alliance of Genome Resources, Oct 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See Crnkl1 in Genome Data Viewer
    Location:
    3q41
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (153764718..153807973, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (133338593..133354329, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (18349226..18351540, complement)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene Ras and Rab interactor 2 Neighboring gene probable rRNA-processing protein EBP2 pseudogene Neighboring gene transfer RNA threonine (anticodon AGU) 15 Neighboring gene N(alpha)-acetyltransferase 20, NatB catalytic subunit Neighboring gene cilia and flagella associated protein 61 Neighboring gene eukaryotic translation initiation factor 4A1, pseudogene 3 Neighboring gene INSM transcriptional repressor 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Mutational landscape of basal cell carcinomas by whole-exome sequencing. Jayaraman SS, et al. J Invest Dermatol, 2014 Jan. PMID 23774526
    2. A novel rat orthologue and homologue for the Drosophila crooked neck gene in neural stem cells and their immediate descendants. Amada N, et al. J Biochem, 2003 May. PMID 12801913
    3. Drosophila crooked-neck protein co-fractionates in a multiprotein complex with splicing factors. Raisin-Tani S, et al. Biochem Biophys Res Commun, 2002 Aug 16. PMID 12163015
    4. Crooked neck is a component of the human spliceosome and implicated in the splicing process. Chung S, et al. Biochim Biophys Acta, 2002 Jul 19. PMID 12084575
    5. Splicing and beyond: the many faces of the Prp19 complex. Chanarat S, et al. Biochim Biophys Acta, 2013 Oct. PMID 23742842

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC93283

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in cellular response to brain-derived neurotrophic factor stimulus IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in cellular response to leukemia inhibitory factor IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in cerebral cortex development IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in spliceosomal complex assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in spliceosomal complex assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in spliceosomal complex assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    part_of Prp19 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U2-type catalytic step 2 spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U2-type catalytic step 2 spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of U2-type catalytic step 2 spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of catalytic step 2 spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear speck 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
    		  
    part_of post-mRNA release spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of spliceosomal complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    crooked neck-like protein 1
    Names
    Crn, crooked neck-like 1
    crooked neck homolog
    crooked neck pre-mRNA splicing factor-like 1
    crooked neck-like 1 protein-like
    crooked neck-like protein 1-like

    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_053797.2 → NP_446249.1  crooked neck-like protein 1

      See identical proteins and their annotated locations for NP_446249.1

      Status: VALIDATED

      Source sequence(s)
      BC085718
      UniProtKB/Swiss-Prot
      P63155
      UniProtKB/TrEMBL
      A0A0G2K5Q2, A6H999
      Related
      ENSRNOP00000014632.7, ENSRNOT00000014632.9
      Conserved Domains (4) summary
      pfam02184
      Location:196 → 227
      HAT; HAT (Half-A-TPR) repeat
      COG5107
      Location:130 → 525
      RNA14; Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]
      sd00006
      Location:84 → 109
      TPR; TPR repeat [structural motif]
      cl26712
      Location:64 → 195
      U3_assoc_6; U3 small nucleolar RNA-associated protein 6

    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_086021.1 Reference GRCr8

      Range
      153764718..153807973 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063282973.1 → XP_063139043.1  crooked neck-like protein 1 isoform X1

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P63155.1 GenPept UniProtKB/Swiss-Prot:P63155

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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