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    Chi3l1 chitinase 3 like 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 89824, updated on 25-May-2017
    Official Symbol
    Chi3l1provided by RGD
    Official Full Name
    chitinase 3 like 1provided by RGD
    Primary source
    RGD:620874
    See related
    Ensembl:ENSRNOG00000053272
    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
    Chil1; GP-39; CGP-39
    Summary
    human homolog plays a role in vascular smooth muscle cell migration and adhesion [RGD, Feb 2006]
    Orthologs
    Location:
    13q13
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (51022844..51030797)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 13 NC_005112.3 (56074912..56086477)

    Chromosome 13 - NC_005112.4Genomic Context describing neighboring genes Neighboring gene chitinase 1 Neighboring gene uncharacterized LOC102552406 Neighboring gene myosin binding protein H Neighboring gene adenosine A1 receptor

    • 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

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Markers

    Homology

    Clone Names

    • MGC109420

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
     
    chitin binding ISO
    Inferred from Sequence Orthology
    more info
     
    chitin binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    NOT chitinase activity ISO
    Inferred from Sequence Orthology
    more info
     
    molecular_function ND
    No biological Data available
    more info
     
    Process Evidence Code Pubs
    activation of NF-kappaB-inducing kinase activity ISO
    Inferred from Sequence Orthology
    more info
     
    activation of NF-kappaB-inducing kinase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    apoptotic process IEA
    Inferred from Electronic Annotation
    more info
     
    carbohydrate metabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    cellular response to interleukin-1 IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    cellular response to tumor necrosis factor IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    inflammatory response IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    interleukin-8 secretion ISO
    Inferred from Sequence Orthology
    more info
     
    interleukin-8 secretion ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    lung development ISO
    Inferred from Sequence Orthology
    more info
     
    lung development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of ERK1 and ERK2 cascade ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of ERK1 and ERK2 cascade ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of angiogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of angiogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of peptidyl-threonine phosphorylation ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of peptidyl-threonine phosphorylation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of protein kinase B signaling ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of protein kinase B signaling ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    response to interleukin-1 ISO
    Inferred from Sequence Orthology
    more info
     
    response to interleukin-1 ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    response to interleukin-6 ISO
    Inferred from Sequence Orthology
    more info
     
    response to interleukin-6 ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    response to mechanical stimulus ISO
    Inferred from Sequence Orthology
    more info
     
    response to mechanical stimulus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    response to tumor necrosis factor ISO
    Inferred from Sequence Orthology
    more info
     
    response to tumor necrosis factor ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
     
    endoplasmic reticulum ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    extracellular exosome IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular exosome ISO
    Inferred from Sequence Orthology
    more info
     
    extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 
    extracellular space ISO
    Inferred from Sequence Orthology
    more info
     
    perinuclear region of cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    Preferred Names
    chitinase-3-like protein 1
    Names
    cartilage glycoprotein 39
    chitinase 3-like 1 (cartilage glycoprotein-39)
    chitinase 3-like 1 protein

    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_001309820.1NP_001296749.1  chitinase-3-like protein 1 isoform 1 precursor

      See identical proteins and their annotated locations for NP_001296749.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer tanscript and encodes the longer isoform (1).
      Source sequence(s)
      AC117152, BC091365
      UniProtKB/Swiss-Prot
      Q9WTV1
      Conserved Domains (2) summary
      cd02872
      Location:32388
      GH18_chitolectin_chitotriosidase; This conserved domain family includes a large number of catalytically inactive chitinase-like lectins (chitolectins) including YKL-39, YKL-40 (HCGP39), YM1, oviductin, and AMCase (acidic mammalian chitinase), as well as catalytically active ...
      smart00636
      Location:31365
      Glyco_18; Glyco_18 domain
    2. NM_053560.2NP_446012.2  chitinase-3-like protein 1 isoform 2 precursor

      See identical proteins and their annotated locations for NP_446012.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' structure compared to variant 1. The encoded isoform (2) has a distinct N-terminus, and is shorter than isoform 1.
      Source sequence(s)
      AC117152, BC091365
      UniProtKB/Swiss-Prot
      Q9WTV1
      Related
      ENSRNOP00000074871.1, ENSRNOT00000078599.1
      Conserved Domains (2) summary
      cd02872
      Location:22378
      GH18_chitolectin_chitotriosidase; This conserved domain family includes a large number of catalytically inactive chitinase-like lectins (chitolectins) including YKL-39, YKL-40 (HCGP39), YM1, oviductin, and AMCase (acidic mammalian chitinase), as well as catalytically active ...
      smart00636
      Location:21355
      Glyco_18; Glyco_18 domain

    RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005112.4 Reference Rnor_6.0 Primary Assembly

      Range
      51022844..51030797
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate Rn_Celera

    Genomic

    1. AC_000081.1 Alternate Rn_Celera

      Range
      45969872..45977855
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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