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CHI3L2 chitinase 3 like 2 [ Homo sapiens (human) ]

Gene ID: 1117, updated on 11-Jun-2021

Summary

Official Symbol
CHI3L2provided by HGNC
Official Full Name
chitinase 3 like 2provided by HGNC
Primary source
HGNC:HGNC:1933
See related
Ensembl:ENSG00000064886 MIM:601526
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
CHIL2; YKL39; YKL-39
Summary
The protein encoded by this gene is similar to bacterial chitinases but lacks chitinase activity. The encoded protein is secreted and is involved in cartilage biogenesis. Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Apr 2012]
Expression
Biased expression in appendix (RPKM 55.9), salivary gland (RPKM 27.1) and 11 other tissues See more
Orthologs
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Genomic context

See CHI3L2 in Genome Data Viewer
Location:
1p13.2
Exon count:
12
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (111227080..111243440)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (111770281..111786062)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene DNA damage regulated autophagy modulator 2 Neighboring gene choline/ethanolamine phosphotransferase 1 Neighboring gene DENN domain containing 2D Neighboring gene uncharacterized LOC107985180 Neighboring gene chitinase, acidic pseudogene 1 Neighboring gene chitinase, acidic pseudogene 2

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 Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Tat tat Microarray analysis indicates HIV-1 Tat-induced upregulation of chitinase 3-like 2 (CHI3L2) in primary human brain microvascular endothelial cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables carbohydrate binding IEA
Inferred from Electronic Annotation
more info
 
enables chitin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables chitin binding IDA
Inferred from Direct Assay
more info
PubMed 
NOT enables chitinase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
NOT enables chitinase activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
involved_in carbohydrate metabolic process IEA
Inferred from Electronic Annotation
more info
 
involved_in chitin catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
is_active_in extracellular region IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in extracellular space HDA PubMed 

General protein information

Preferred Names
chitinase-3-like protein 2
Names
chondrocyte protein 39

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_001025197.1NP_001020368.1  chitinase-3-like protein 2 isoform b

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a.
    Source sequence(s)
    BM787868, BQ181849, U58514
    Consensus CDS
    CCDS30803.1
    UniProtKB/Swiss-Prot
    Q15782
    Related
    ENSP00000358759.2, ENST00000369744.6
    Conserved Domains (2) summary
    cd02872
    Location:19377
    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:18355
    Glyco_18; Glyco_18 domain
  2. NM_001025199.2NP_001020370.1  chitinase-3-like protein 2 isoform c

    See identical proteins and their annotated locations for NP_001020370.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (c) is shorter at the N-terminus compared to isoform a.
    Source sequence(s)
    BQ181849, U58514, U58515
    Consensus CDS
    CCDS41367.1
    UniProtKB/Swiss-Prot
    Q15782
    Related
    ENSP00000437086.1, ENST00000466741.5
    Conserved Domains (2) summary
    cd02872
    Location:2308
    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:3286
    Glyco_18; Glyco_18 domain
  3. NM_004000.3NP_003991.2  chitinase-3-like protein 2 isoform a precursor

    See identical proteins and their annotated locations for NP_003991.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (a).
    Source sequence(s)
    BG698401, BQ181849, U58514
    Consensus CDS
    CCDS30802.1
    UniProtKB/Swiss-Prot
    Q15782
    Related
    ENSP00000358763.4, ENST00000369748.9
    Conserved Domains (1) summary
    cd02872
    Location:29387
    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 ...

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    111227080..111243440
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024452754.1XP_024308522.1  chitinase-3-like protein 2 isoform X2

  2. XM_024452753.1XP_024308521.1  chitinase-3-like protein 2 isoform X2

  3. XM_024452752.1XP_024308520.1  chitinase-3-like protein 2 isoform X1

    Conserved Domains (1) summary
    cd02872
    Location:29387
    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 ...
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