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    Chodl chondrolectin [ Rattus norvegicus (Norway rat) ]

    Gene ID: 288289, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Chodlprovided by RGD
    Official Full Name
    chondrolectinprovided by RGD
    Primary source
    RGD:1309885
    See related
    EnsemblRapid:ENSRNOG00000001915 AllianceGenome:RGD:1309885
    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
    Summary
    Predicted to be involved in positive regulation of axonogenesis. Predicted to act upstream of or within regulation of neuron projection development. Predicted to be located in centrosome; cytosol; and perinuclear region of cytoplasm. Predicted to be active in cytoplasm. Orthologous to human CHODL (chondrolectin). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Spleen (RPKM 66.0), Muscle (RPKM 65.8) and 6 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Chodl in Genome Data Viewer
    Location:
    11q11
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (31141030..31163342)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (17654137..17676450)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (17537980..17560305)

    Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene similar to human chromosome 21 open reading frame 91 Neighboring gene uncharacterized LOC120095597 Neighboring gene heat shock protein family A (Hsp70) member 8, pseudogene 31 Neighboring gene transmembrane serine protease 15 Neighboring gene ribosomal protein L27 like 3

    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. Molecular cloning and characterization of human chondrolectin, a novel type I transmembrane protein homologous to C-type lectins. Weng L, et al. Genomics, 2002 Jul. PMID 12079284
    2. Chondrolectin affects cell survival and neuronal outgrowth in in vitro and in vivo models of spinal muscular atrophy. Sleigh JN, et al. Hum Mol Genet, 2014 Feb 15. PMID 24067532
    3. Antibody-based protein profiling of the human chromosome 21. Uhlén M, et al. Mol Cell Proteomics, 2012 Mar. PMID 22042635, Free PMC Article
    4. 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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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    NOT enables hyaluronic acid binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in positive regulation of axonogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of neuron projection development ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in centrosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in centrosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in perinuclear region of cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    chondrolectin

    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_001415061.1 → NP_001401990.1  chondrolectin precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000011
      UniProtKB/TrEMBL
      A6JL46, D3ZI86
      Related
      ENSRNOP00000101267.1, ENSRNOT00000124696.1

    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_086029.1 Reference GRCr8

      Range
      31141030..31163342
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006248004.5 → XP_006248066.1  chondrolectin isoform X1

      UniProtKB/TrEMBL
      A0A0G2K2H3
      Related
      ENSRNOP00000032956.5, ENSRNOT00000031889.7
      Conserved Domains (1) summary
      cl02432
      Location:28 → 180
      CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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