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Chodl chondrolectin [ Rattus norvegicus (Norway rat) ]

Gene ID: 288289, updated on 10-Jul-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, Apr 2022]
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
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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