Chi3l1 MGI Mouse Gene Detail - MGI:1340899

Symbol

Chi3l1
Name

chitinase 3 like 1
Synonyms

Brp39, Chil1, Gp39

Feature Type

protein coding gene
IDs

MGI:1340899
NCBI Gene: 12654
Alliance

gene page
Transcription Start Sites

8 TSS

Sequence Map

Chr1:134109894-134117769 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 1, 58.15 cM
Mapping Data

4 experiments

SNPs within 2kb

247 from dbSNP Build 142
Strain Annotations

18
RFLP

1

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1340899	protein coding gene	Chr1:134109894-134117919 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0016499	protein coding gene	Chr1:137824315-137832999 (+)
A/J	MGP_AJ_G0016482	protein coding gene	Chr1:132642572-132651652 (+)
AKR/J	MGP_AKRJ_G0016447	protein coding gene	Chr1:136600704-136610528 (+)
BALB/cJ	MGP_BALBcJ_G0016442	protein coding gene	Chr1:132979042-132987262 (+)
C3H/HeJ	MGP_C3HHeJ_G0016268	protein coding gene	Chr1:136701221-136710457 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0016903	protein coding gene	Chr1:142853571-142863191 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0014614	protein coding gene	Chr1:125785595-125793557 (+)
CAST/EiJ	MGP_CASTEiJ_G0015848	protein coding gene	Chr1:135749251-135758496 (+)
CBA/J	MGP_CBAJ_G0016241	protein coding gene	Chr1:147790169-147803587 (+)
DBA/2J	MGP_DBA2J_G0016347	protein coding gene	Chr1:131655749-131664082 (+)
FVB/NJ	MGP_FVBNJ_G0016346	protein coding gene	Chr1:130281838-130290561 (+)
LP/J	MGP_LPJ_G0016418	protein coding gene	Chr1:139101118-139111991 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0016371	protein coding gene	Chr1:153500953-153509972 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0016939	protein coding gene	Chr1:136327739-136336745 (+)
PWK/PhJ	MGP_PWKPhJ_G0015634	protein coding gene	Chr1:130674618-130682804 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0015421	protein coding gene	Chr1:135297709-135306711 (+)
WSB/EiJ	MGP_WSBEiJ_G0015911	protein coding gene	Chr1:136360760-136369828 (+)

Human Ortholog

CHI3L1, chitinase 3 like 1

Vertebrate Orthologs

2

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

CHI3L1, chitinase 3 like 1
Synonyms

ASRT7, CGP-39, GP-39, GP39, hCGP-39, HC-gp39, HCGP-3P, YK-40, YKL-40, YKL40, YYL-40
Links

HGNC:1932

NCBI Gene ID: 1116

neXtProt AC: NX_P36222

UniProt: P36222
Chr Location

1q32.1; chr1:203178931-203186704 (-) GRCh38

MGI Vertebrate Homology

Chi3l1 stringent orthology
1 human;1 mouse;1 rat
HCOP

vertebrate homology predictions: CHI3L1
Gene Tree

Chi3l1

Diseases

2 with human CHI3L1 associations

				Human Disease	Mouse Models
				asthma IDs asthma DOID:2841 DOID:12703 DOID:13829 DOID:13830 DOID:2840 DOID:5783 ICD10CM:J45 ICD9CM:493 ICD9CM:493.9 KEGG:05310 MESH:D001249 NCI:C28397 OMIM:600807 UMLS_CUI:C0004096
				schizophrenia IDs schizophrenia DOID:5419 DOID:14734 ICD10CM:F20 ICD9CM:295 ICD9CM:295.8 ICD9CM:295.80 ICD9CM:295.9 ICD9CM:295.90 MESH:D012559 NCI:C3362 OMIM:181500 UMLS_CUI:C0036341

Click on a disease name to see all genes associated with that disease.

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Phenotype Summary

13 phenotypes from 1 allele in 1 genetic background
3 phenotypes from multigenic genotypes
32 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

13
Chemically induced (other)

2
Endonuclease-mediated

7
Radiation induced

1
Targeted

3
Genomic Mutations

3 involving Chi3l1
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

29 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Homozygous null mice show impaired OVA-induced Th2 responses with reduced splenocyte proliferation, cytokine production and IgE levels, impaired dendritic cell recruitment, higher CD4 T cell, macrophage and eosinophil apoptosis, and reduced CD4 T cell and alternatively activated macrophage numbers.

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All GO Annotations

31
GO References

9

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

818
Tissues

108
cDNA Data

101
Literature Summary

8

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas

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All Sequences

55
RefSeq

8
UniProt

3
CCDS

CCDS48368.1, CCDS87878.1

Ensembl

ENSMUSG00000064246 (Evidence)
NCBI Gene

12654

			Length	Strain/Species	Flank
genomic	12654	NCBI Gene Model \| MGI Sequence Detail	7876	C57BL/6J	± kb
transcript	NR_174385	RefSeq \| MGI Sequence Detail	1982	ZRU/MplStud
polypeptide	Q61362	UniProt \| EBI \| MGI Sequence Detail	389	Not Applicable

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UniProt

3 Sequences
Protein Ontology

PR:000005423 chitinase-3-like protein 1

(term hierarchy)
PDB

5XEP
InterPro Domains

IPR011583 Chitinase II

IPR029070 Chitinase insertion domain superfamily

IPR001223 Glycoside hydrolase family 18, catalytic domain

IPR017853 Glycoside hydrolase superfamily

IPR050314 Glycosyl Hydrolase Family 18
GlyGen

Q61362 1 site

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All nucleic 105

cDNA 101

Primer pair 3

Other 1

Microarray probesets 3

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MGD-MRK-36073, MGI:107503, MGI:2138570, MGI:7469664

Summaries

All 86

Developmental Gene Expression 8

Gene Ontology 9

Phenotypes 32
Earliest

J:134667 Roderick TH, et al., Two radiation-induced chromosomal inversions in mice (Mus musculus). Proc Natl Acad Sci U S A. 1970 Oct;67(2):961-7
Latest

J:357488 Kui L, et al., BRP39 Regulates Neutrophil Recruitment in NLRP3 Inflammasome-Induced Liver Inflammation. Cell Mol Gastroenterol Hepatol. 2024;17(3):481-497

TSS for Chi3l1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr8858	Chr1:134109888-134109915 (+)	8 bp
Tssr8859	Chr1:134110194-134110215 (+)	311 bp
Tssr8860	Chr1:134111072-134111096 (+)	1,190 bp
Tssr8861	Chr1:134111216-134111225 (+)	1,327 bp
Tssr8862	Chr1:134111279-134111300 (+)	1,396 bp
Tssr8863	Chr1:134116863-134116884 (+)	6,980 bp
Tssr8864	Chr1:134117459-134117470 (+)	7,571 bp
Tssr8865	Chr1:134117571-134117587 (+)	7,685 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 12/10/2024 MGI 6.24