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CHI3L1 chitinase 3 like 1 [ Homo sapiens (human) ]

Gene ID: 1116, updated on 19-Aug-2018

Summary

Official Symbol
CHI3L1provided by HGNC
Official Full Name
chitinase 3 like 1provided by HGNC
Primary source
HGNC:HGNC:1932
See related
Ensembl:ENSG00000133048 MIM:601525; Vega:OTTHUMG00000042122
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
GP39; ASRT7; GP-39; YK-40; YKL40; CGP-39; YKL-40; YYL-40; HC-gp39; HCGP-3P; hCGP-39
Summary
Chitinases catalyze the hydrolysis of chitin, which is an abundant glycopolymer found in insect exoskeletons and fungal cell walls. The glycoside hydrolase 18 family of chitinases includes eight human family members. This gene encodes a glycoprotein member of the glycosyl hydrolase 18 family. The protein lacks chitinase activity and is secreted by activated macrophages, chondrocytes, neutrophils and synovial cells. The protein is thought to play a role in the process of inflammation and tissue remodeling. [provided by RefSeq, Sep 2009]
Expression
Biased expression in brain (RPKM 100.8), urinary bladder (RPKM 89.5) and 8 other tissues See more
Orthologs

Genomic context

See CHI3L1 in Genome Data Viewer
Location:
1q32.1
Exon count:
10
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 1 NC_000001.11 (203178931..203186794, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (203148059..203155978, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene adenosine A1 receptor Neighboring gene myosin binding protein H Neighboring gene chitinase 1 Neighboring gene nucleophosmin 1 pseudogene 40

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Jun 15 11:32:44 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Asthma-related traits, susceptibility to, 7
MedGen: C2677770 OMIM: 611960 GeneReviews: Not available
Compare labs
Schizophrenia
MedGen: C0036341 OMIM: 181500 GeneReviews: Not available
Compare labs

NHGRI GWAS Catalog

Description
Clozapine-induced agranulocytosis is associated with rare HLA-DQB1 and HLA-B alleles.
NHGRI GWA Catalog
Effect of variation in CHI3L1 on serum YKL-40 level, risk of asthma, and lung function.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Vpr vpr A stable-isotope labeling by amino acids in cell culture coupled with mass spectrometry-based proteomics identifies upregulation of chitinase 3-like 1 (CHI3L1, cartilage glycoprotein-39) expression by HIV-1 Vpr in Vpr transduced macrophages PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Immune System, organism-specific biosystem (from REACTOME)
    Immune System, organism-specific biosystemHumans are exposed to millions of potential pathogens daily, through contact, ingestion, and inhalation. Our ability to avoid infection depends on the adaptive immune system and during the first crit...
  • Innate Immune System, organism-specific biosystem (from REACTOME)
    Innate Immune System, organism-specific biosystemInnate immunity encompases the nonspecific part of immunity tha are part of an individual's natural biologic makeup
  • Neutrophil degranulation, organism-specific biosystem (from REACTOME)
    Neutrophil degranulation, organism-specific biosystemNeutrophils are the most abundant leukocytes (white blood cells), indispensable in defending the body against invading microorganisms. In response to infection, neutrophils leave the circulation and ...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ38139, DKFZp686N19119

Gene Ontology Provided by GOA

Function Evidence Code Pubs
carbohydrate binding IEA
Inferred from Electronic Annotation
more info
 
chitin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chitin binding IDA
Inferred from Direct Assay
more info
PubMed 
NOT chitinase activity IDA
Inferred from Direct Assay
more info
PubMed 
extracellular matrix structural constituent NAS
Non-traceable Author Statement
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
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
 
cartilage development NAS
Non-traceable Author Statement
more info
PubMed 
cellular response to interleukin-1 IEA
Inferred from Electronic Annotation
more info
 
cellular response to tumor necrosis factor ISS
Inferred from Sequence or Structural Similarity
more info
 
inflammatory response IEP
Inferred from Expression Pattern
more info
PubMed 
interleukin-8 secretion ISS
Inferred from Sequence or Structural Similarity
more info
 
lung development IMP
Inferred from Mutant Phenotype
more info
PubMed 
neutrophil degranulation TAS
Traceable Author Statement
more info
 
positive regulation of ERK1 and ERK2 cascade IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of angiogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of peptidyl-threonine phosphorylation ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of protein kinase B signaling IMP
Inferred from Mutant Phenotype
more info
PubMed 
response to interleukin-1 IEP
Inferred from Expression Pattern
more info
PubMed 
response to interleukin-6 IEP
Inferred from Expression Pattern
more info
PubMed 
response to mechanical stimulus IEP
Inferred from Expression Pattern
more info
PubMed 
response to tumor necrosis factor IEP
Inferred from Expression Pattern
more info
PubMed 
Component Evidence Code Pubs
cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
 
endoplasmic reticulum ISS
Inferred from Sequence or Structural Similarity
more info
 
extracellular exosome HDA PubMed 
extracellular matrix NAS
Non-traceable Author Statement
more info
PubMed 
extracellular region IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
extracellular region TAS
Traceable Author Statement
more info
 
extracellular space HDA PubMed 
extracellular space IDA
Inferred from Direct Assay
more info
PubMed 
perinuclear region of cytoplasm IEA
Inferred from Electronic Annotation
more info
 
specific granule lumen TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
chitinase-3-like protein 1
Names
39 kDa synovial protein
cartilage glycoprotein 39
chitinase 3-like 1 (cartilage glycoprotein-39)

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_013056.1 RefSeqGene

    Range
    5001..12864
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001276.2NP_001267.2  chitinase-3-like protein 1 precursor

    See identical proteins and their annotated locations for NP_001267.2

    Status: REVIEWED

    Source sequence(s)
    AK225266, BC008568, DA167112
    Consensus CDS
    CCDS1435.1
    UniProtKB/Swiss-Prot
    P36222
    UniProtKB/TrEMBL
    A0A024R969
    Related
    ENSP00000255409.3, OTTHUMP00000039087, ENST00000255409.7, OTTHUMT00000100265
    Conserved Domains (2) summary
    cd02872
    Location:24380
    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:23357
    Glyco_18; Glyco_18 domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p12 Primary Assembly

    Range
    203178931..203186794 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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