Chi3l1 (chitinase 3 like 1) - Rat Genome Database

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Gene: Chi3l1 (chitinase 3 like 1) Rattus norvegicus
Analyze
Symbol: Chi3l1
Name: chitinase 3 like 1
RGD ID: 620874
Description: Predicted to enable chitin binding activity. Involved in cellular response to interleukin-1; cellular response to tumor necrosis factor; and inflammatory response. Located in extracellular space. Biomarker of hypertension. Human ortholog(s) of this gene implicated in asthma and schizophrenia. Orthologous to human CHI3L1 (chitinase 3 like 1); PARTICIPATES IN amino sugar metabolic pathway; nucleotide sugar metabolic pathway; INTERACTS WITH (+)-schisandrin B; 17beta-estradiol; 17beta-estradiol 3-benzoate.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: cartilage glycoprotein 39; CGP-39; Chil1; chitinase 3-like 1; chitinase 3-like 1 (cartilage glycoprotein-39); chitinase-3-like protein 1; GP-39; MGC109420
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81348,193,839 - 48,201,822 (+)NCBIGRCr8
mRatBN7.21345,641,802 - 45,649,787 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1345,641,802 - 45,649,787 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1348,249,911 - 48,257,861 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01349,537,967 - 49,545,918 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01346,802,803 - 46,810,792 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01351,022,844 - 51,030,797 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1351,022,681 - 51,030,802 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01356,074,912 - 56,086,477 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41347,139,658 - 47,147,591 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11347,155,099 - 47,161,151 (+)NCBI
Celera1345,969,872 - 45,977,855 (+)NCBICelera
Cytogenetic Map13q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-amino-2-deoxy-D-glucopyranose  (ISO)
3,4-methylenedioxymethamphetamine  (EXP,ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (ISO)
5-fluorouracil  (ISO)
7,12-dimethyltetraphene  (ISO)
acetamide  (EXP)
acrolein  (ISO)
aflatoxin B1  (EXP)
aldehydo-D-glucosamine  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP)
amphotericin B  (ISO)
antirheumatic drug  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
atazanavir sulfate  (ISO)
benzalkonium chloride  (ISO)
benzo[a]pyrene  (ISO)
beta-D-glucosamine  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
buta-1,3-diene  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP)
calcitriol  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chenodeoxycholic acid  (ISO)
chlorpyrifos  (ISO)
cisplatin  (ISO)
cobalt dichloride  (EXP,ISO)
crocidolite asbestos  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
deoxycholic acid  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dimethylarsinic acid  (ISO)
dioxygen  (EXP,ISO)
diuron  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
ethanol  (ISO)
etoposide  (ISO)
fulvestrant  (ISO)
furan  (EXP)
glycochenodeoxycholic acid  (ISO)
glycocholic acid  (ISO)
glycodeoxycholic acid  (ISO)
indometacin  (ISO)
iron atom  (ISO)
iron(0)  (ISO)
isotretinoin  (ISO)
ketamine  (EXP)
Mesaconitine  (EXP)
methimazole  (EXP)
methylmercury chloride  (EXP,ISO)
naphthalene  (ISO)
nefazodone  (ISO)
nickel dichloride  (ISO)
nitrofen  (EXP)
ozone  (ISO)
p-menthan-3-ol  (EXP)
paclitaxel  (EXP)
paracetamol  (ISO)
paraquat  (EXP,ISO)
pentanal  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
pioglitazone  (ISO)
pirinixic acid  (ISO)
progesterone  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
silicon dioxide  (EXP,ISO)
silver atom  (ISO)
silver(0)  (ISO)
Soman  (EXP)
sulfadimethoxine  (EXP)
Sunset Yellow FCF  (ISO)
testosterone  (EXP)
tetrachloromethane  (EXP)
titanium dioxide  (EXP,ISO)
triadimefon  (EXP,ISO)
tributylstannane  (EXP)
trichostatin A  (ISO)
triclosan  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
XL147  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function
carbohydrate binding  (IEA)
chitin binding  (IBA,IEA,ISO,ISS)
chitinase activity  (IBA,IEA,ISO)
protein binding  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. High serum concentration of YKL-40 is associated with short survival in patients with acute myeloid leukemia. Bergmann OJ, etal., Clin Cancer Res. 2005 Dec 15;11(24 Pt 1):8644-52.
2. Strong induction of members of the chitinase family of proteins in atherosclerosis: chitotriosidase and human cartilage gp-39 expressed in lesion macrophages. Boot RG, etal., Arterioscler Thromb Vasc Biol. 1999 Mar;19(3):687-94.
3. Prognostic value of PINP, bone alkaline phosphatase, CTX-I, and YKL-40 in patients with metastatic prostate carcinoma. Brasso K, etal., Prostate. 2006 Apr 1;66(5):503-13.
4. A chitinase-like protein in the lung and circulation of patients with severe asthma. Chupp GL, etal., N Engl J Med. 2007 Nov 15;357(20):2016-27.
5. High serum YKL-40 level after surgery for colorectal carcinoma is related to short survival. Cintin C, etal., Cancer. 2002 Jul 15;95(2):267-74.
6. Preoperative serum YKL-40 is a marker for detection and prognosis of endometrial cancer. Diefenbach CS, etal., Gynecol Oncol. 2007 Feb;104(2):435-42. Epub 2006 Oct 4.
7. Congenic mapping and sequence analysis of the Renin locus. Flister MJ, etal., Hypertension. 2013 Apr;61(4):850-6. doi: 10.1161/HYPERTENSIONAHA.111.01008. Epub 2013 Mar 4.
8. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
9. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
10. High plasma YKL-40 level in patients with ovarian cancer stage III is related to shorter survival. Hogdall EV, etal., Oncol Rep. 2003 Sep-Oct;10(5):1535-8.
11. Gene expression in papillary thyroid carcinoma reveals highly consistent profiles. Huang Y, etal., Proc Natl Acad Sci U S A. 2001 Dec 18;98(26):15044-9.
12. Identification of differentially expressed genes in rat silicosis model by suppression subtractive hybridization analysis. Jin Z, etal., Acta Biochim Biophys Sin (Shanghai). 2008 Aug;40(8):740-6.
13. YKL-40 in giant cells and macrophages from patients with giant cell arteritis. Johansen JS, etal., Arthritis Rheum. 1999 Dec;42(12):2624-30.
14. High serum YKL-40 levels in patients with primary breast cancer is related to short recurrence free survival. Johansen JS, etal., Breast Cancer Res Treat. 2003 Jul;80(1):15-21.
15. High serum YKL-40 level in patients with small cell lung cancer is related to early death. Johansen JS, etal., Lung Cancer. 2004 Dec;46(3):333-40.
16. Increased serum YKL-40 in patients with pulmonary sarcoidosis--a potential marker of disease activity? Johansen JS, etal., Respir Med. 2005 Apr;99(4):396-402. Epub 2004 Nov 5.
17. Serum YKL-40 concentrations in patients with rheumatoid arthritis: relation to disease activity. Johansen JS, etal., Rheumatology (Oxford). 1999 Jul;38(7):618-26.
18. Serum and BALF YKL-40 levels are predictors of survival in idiopathic pulmonary fibrosis. Korthagen NM, etal., Respir Med. 2011 Jan;105(1):106-13.
19. Serum YKL-40 levels in patients with coronary artery disease. Kucur M, etal., Coron Artery Dis. 2007 Aug;18(5):391-6.
20. Role of breast regression protein 39 (BRP-39)/chitinase 3-like-1 in Th2 and IL-13-induced tissue responses and apoptosis. Lee CG, etal., J Exp Med. 2009 May 11;206(5):1149-66. Epub 2009 May 4.
21. Chitotriosidase and YKL-40 in normal and pre-eclamptic pregnancies. Madazli R, etal., Int J Gynaecol Obstet. 2008 Mar;100(3):239-43. Epub 2007 Dec 3.
22. Differential gene expression profiling in human brain tumors. Markert JM, etal., Physiol Genomics. 2001 Feb 7;5(1):21-33.
23. Role of Breast Regression Protein (BRP)-39 in the Pathogenesis of Cigarette Smoke-Induced Inflammation and Emphysema. Matsuura H, etal., Am J Respir Cell Mol Biol. 2010 Jul 23.
24. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
25. Serum YKL-40 concentrations in newly diagnosed multiple myeloma patients and YKL-40 expression in malignant plasma cells. Mylin AK, etal., Eur J Haematol. 2006 Nov;77(5):416-24. Epub 2006 Aug 23.
26. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
27. Serum levels of YKL-40 increases in patients with acute myocardial infarction. Nojgaard C, etal., Coron Artery Dis. 2008 Jun;19(4):257-63.
28. YKL-40, a matrix protein of specific granules in neutrophils, is elevated in serum of patients with community-acquired pneumonia requiring hospitalization. Nordenbaek C, etal., J Infect Dis. 1999 Nov;180(5):1722-6.
29. High serum levels of YKL-40 in patients with systemic sclerosis are associated with pulmonary involvement. Nordenbaek C, etal., Scand J Rheumatol. 2005 Jul-Aug;34(4):293-7.
30. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
31. YKL-40 is elevated in cerebrospinal fluid from patients with purulent meningitis. Ostergaard C, etal., Clin Diagn Lab Immunol. 2002 May;9(3):598-604.
32. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
33. YKL-40, a marker of inflammation and endothelial dysfunction, is elevated in patients with type 1 diabetes and increases with levels of albuminuria. Rathcke CN, etal., Diabetes Care. 2009 Feb;32(2):323-8. Epub 2008 Oct 28.
34. Association of polymorphisms of the CHI3L1 gene with asthma and atopy: a populations-based study of 6514 Danish adults. Rathcke CN, etal., PLoS One. 2009 Jul 1;4(7):e6106.
35. Plasma YKL-40 levels are elevated in patients with chronic heart failure. Rathcke CN, etal., Scand Cardiovasc J. 2010 Apr;44(2):92-9.
36. Inflammatory cytokines induce production of CHI3L1 by articular chondrocytes. Recklies AD, etal., J Biol Chem. 2005 Dec 16;280(50):41213-21. Epub 2005 Oct 18.
37. GOA pipeline RGD automated data pipeline
38. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
39. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
40. Comprehensive gene review and curation RGD comprehensive gene curation
41. Elevated serum level of YKL-40 is an independent prognostic factor for poor survival in patients with metastatic melanoma. Schmidt H, etal., Cancer. 2006 Mar 1;106(5):1130-9.
42. Studies on the molecular pathogenesis of extraskeletal myxoid chondrosarcoma-cytogenetic, molecular genetic, and cDNA microarray analyses. Sjogren H, etal., Am J Pathol. 2003 Mar;162(3):781-92.
43. The chitinase-like proteins breast regression protein-39 and YKL-40 regulate hyperoxia-induced acute lung injury. Sohn MH, etal., Am J Respir Crit Care Med. 2010 Oct 1;182(7):918-28. Epub 2010 Jun 17.
44. Elevated pretreatment serum concentration of YKL-40-An independent prognostic biomarker for poor survival in patients with metastatic nonsmall cell lung cancer. Thom I, etal., Cancer. 2010 Sep 1;116(17):4114-21.
45. Increased levels of the calcification marker matrix Gla Protein and the inflammatory markers YKL-40 and CRP in patients with type 2 diabetes and ischemic heart disease. Thomsen SB, etal., Cardiovasc Diabetol. 2010 Dec 8;9:86.
46. Gene expression profiles of major cytokines in the nucleus tractus solitarii of the spontaneously hypertensive rat. Waki H, etal., Auton Neurosci. 2008 Nov 3;142(1-2):40-4. Epub 2008 Aug 13.
Additional References at PubMed
PMID:8245017   PMID:9492324   PMID:12477932   PMID:12775711   PMID:15489334   PMID:16502470   PMID:18403759   PMID:20650887   PMID:21385870   PMID:21478032   PMID:21546314   PMID:21987626  
PMID:23376485   PMID:23533145   PMID:23558346   PMID:24380732   PMID:25062286   PMID:26978347   PMID:31002152   PMID:31115541   PMID:33744763   PMID:34168643  


Genomics

Comparative Map Data
Chi3l1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81348,193,839 - 48,201,822 (+)NCBIGRCr8
mRatBN7.21345,641,802 - 45,649,787 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1345,641,802 - 45,649,787 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1348,249,911 - 48,257,861 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01349,537,967 - 49,545,918 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01346,802,803 - 46,810,792 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01351,022,844 - 51,030,797 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1351,022,681 - 51,030,802 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01356,074,912 - 56,086,477 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41347,139,658 - 47,147,591 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11347,155,099 - 47,161,151 (+)NCBI
Celera1345,969,872 - 45,977,855 (+)NCBICelera
Cytogenetic Map13q13NCBI
CHI3L1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381203,178,931 - 203,186,704 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1203,178,931 - 203,186,704 (-)EnsemblGRCh38hg38GRCh38
GRCh371203,148,059 - 203,155,832 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361201,414,682 - 201,422,545 (-)NCBINCBI36Build 36hg18NCBI36
Build 341199,879,586 - 199,887,534NCBI
Celera1176,277,300 - 176,285,163 (-)NCBICelera
Cytogenetic Map1q32.1NCBI
HuRef1174,313,188 - 174,321,051 (-)NCBIHuRef
CHM1_11204,570,380 - 204,578,243 (-)NCBICHM1_1
T2T-CHM13v2.01202,441,684 - 202,449,457 (-)NCBIT2T-CHM13v2.0
Chi3l1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391134,109,894 - 134,117,769 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1134,109,914 - 134,117,919 (+)EnsemblGRCm39 Ensembl
GRCm381134,182,156 - 134,190,031 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1134,182,176 - 134,190,181 (+)EnsemblGRCm38mm10GRCm38
MGSCv371136,078,981 - 136,086,608 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361135,998,892 - 136,006,442 (+)NCBIMGSCv36mm8
Celera1136,794,910 - 136,802,547 (+)NCBICelera
Cytogenetic Map1E4NCBI
cM Map158.15NCBI
Chi3l1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540639,191,073 - 39,202,020 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540639,195,101 - 39,201,808 (-)NCBIChiLan1.0ChiLan1.0
CHI3L1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2146,191,248 - 46,200,704 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1146,155,762 - 46,166,214 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01178,778,081 - 178,789,704 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11183,073,287 - 183,083,229 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1183,075,312 - 183,083,229 (-)Ensemblpanpan1.1panPan2
CHI3L1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1725,620 - 32,954 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl726,316 - 33,427 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha782,048 - 88,664 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0736,653 - 43,433 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl736,715 - 43,899 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1725,021 - 31,646 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.07134,620 - 141,244 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.07157,023 - 163,649 (+)NCBIUU_Cfam_GSD_1.0
Chi3l1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934472,176,383 - 72,183,907 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365671,411,037 - 1,418,801 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365671,411,080 - 1,418,332 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CHI3L1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9113,885,542 - 113,895,131 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19113,885,541 - 113,895,033 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29125,344,018 - 125,353,512 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CHI3L1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12526,160,993 - 26,169,005 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2526,160,961 - 26,169,566 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605526,937,390 - 26,945,433 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Chi3l1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248077,655,620 - 7,662,362 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248077,655,777 - 7,664,484 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Chi3l1
50 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:344
Count of miRNA genes:124
Interacting mature miRNAs:143
Transcripts:ENSRNOT00000060710, ENSRNOT00000071475
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7411662Foco29Food consumption QTL 2920.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)13931346554313465Rat
9589141Insul28Insulin level QTL 2810.820.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)13931346554313465Rat
2317040Aia21Adjuvant induced arthritis QTL 212.75joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
2317046Aia8Adjuvant induced arthritis QTL 83.9700000286102295joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
2302275Gluco37Glucose level QTL 373.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)131192944946193066Rat
631645Bp121Blood pressure QTL 1213.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131491565559915655Rat
9589164Gluco66Glucose level QTL 666.670.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)131515872260158722Rat
1331784Bp222Blood pressure QTL 2222.944arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131769443653050594Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
61391Bp5Blood pressure QTL 55.6arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)132230187567301875Rat
70170Eae14Experimental allergic encephalomyelitis QTL 140.0024nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)132320344868203448Rat
6893338Cm76Cardiac mass QTL 7600.99heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)132369296968692969Rat
1558644Cm45Cardiac mass QTL 453.60.002heart mass (VT:0007028)heart wet weight (CMO:0000069)132369296968692969Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
2301962Cm72Cardiac mass QTL 724.12heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)133124133158363171Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
2303563Bw89Body weight QTL 896body mass (VT:0001259)body weight (CMO:0000012)133228447177284471Rat
61340Bp25Blood pressure QTL 254.20.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133453521879535218Rat
12879477Bp401Blood pressure QTL 401arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133726209282262092Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
4889861Pur29Proteinuria QTL 2913.80.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)133741558480753406Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133741558482415584Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)133843340883433408Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133975454484754544Rat
4145117Mcs27Mammary carcinoma susceptibility QTL 270.0001mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)134343790447841255Rat
6893344Cm79Cardiac mass QTL 791.50.04heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)134372077062022792Rat
12879436Bp395Blood pressure QTL 395arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134463918245700190Rat
12879444Bp397Blood pressure QTL 397arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134504940490049404Rat
12879472Bp399Blood pressure QTL 399arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134522835847841255Rat
12879471Bp398Blood pressure QTL 398arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134551471990514719Rat

Markers in Region
RH142356  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21345,649,558 - 45,649,709 (+)MAPPERmRatBN7.2
Rnor_6.01351,030,569 - 51,030,719NCBIRnor6.0
Rnor_5.01356,086,249 - 56,086,399UniSTSRnor5.0
RGSC_v3.41347,147,363 - 47,147,513UniSTSRGSC3.4
Celera1345,977,627 - 45,977,777UniSTS
RH 3.4 Map13172.0UniSTS
Cytogenetic Map13q13UniSTS
BE106626  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21345,643,942 - 45,644,132 (+)MAPPERmRatBN7.2
Rnor_6.01351,024,983 - 51,025,172NCBIRnor6.0
Rnor_5.01356,080,630 - 56,080,819UniSTSRnor5.0
Rnor_5.01356,077,085 - 56,077,274UniSTSRnor5.0
RGSC_v3.41347,141,744 - 47,141,933UniSTSRGSC3.4
Celera1345,972,083 - 45,972,272UniSTS
RH 3.4 Map13178.0UniSTS
Cytogenetic Map13q13UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 1 8 2 17 2 22 1 11
Low 1 34 45 35 2 35 8 11 11 29 21 8
Below cutoff 8 4 4 4 39 6 17

Sequence


RefSeq Acc Id: ENSRNOT00000078599   ⟹   ENSRNOP00000074871
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1345,641,802 - 45,649,787 (+)Ensembl
Rnor_6.0 Ensembl1351,022,681 - 51,030,802 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000108788   ⟹   ENSRNOP00000079988
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1345,642,368 - 45,649,787 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000108902   ⟹   ENSRNOP00000091690
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1345,642,097 - 45,649,787 (+)Ensembl
RefSeq Acc Id: NM_001309820   ⟹   NP_001296749
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81348,194,132 - 48,201,822 (+)NCBI
mRatBN7.21345,642,097 - 45,649,787 (+)NCBI
Rnor_6.01351,023,137 - 51,030,797 (+)NCBI
Celera1345,970,164 - 45,977,855 (+)NCBI
Sequence:
RefSeq Acc Id: NM_053560   ⟹   NP_446012
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81348,193,839 - 48,201,822 (+)NCBI
mRatBN7.21345,641,802 - 45,649,787 (+)NCBI
Rnor_6.01351,022,844 - 51,030,797 (+)NCBI
Rnor_5.01356,074,912 - 56,086,477 (+)NCBI
RGSC_v3.41347,139,658 - 47,147,591 (+)RGD
Celera1345,969,872 - 45,977,855 (+)NCBI
Sequence:
RefSeq Acc Id: NP_446012   ⟸   NM_053560
- Peptide Label: isoform 2 precursor
- UniProtKB: Q5BJR6 (UniProtKB/Swiss-Prot),   Q9WTV1 (UniProtKB/Swiss-Prot),   A6ICA6 (UniProtKB/TrEMBL),   A6ICA8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001296749   ⟸   NM_001309820
- Peptide Label: isoform 1 precursor
- UniProtKB: A0A8I6AFN7 (UniProtKB/TrEMBL),   A6ICA7 (UniProtKB/TrEMBL),   A6ICA8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074871   ⟸   ENSRNOT00000078599
RefSeq Acc Id: ENSRNOP00000091690   ⟸   ENSRNOT00000108902
RefSeq Acc Id: ENSRNOP00000079988   ⟸   ENSRNOT00000108788
Protein Domains
GH18

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9WTV1-F1-model_v2 AlphaFold Q9WTV1 1-381 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620874 AgrOrtholog
BioCyc Gene G2FUF-18249 BioCyc
Ensembl Genes ENSRNOG00000053272 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000078599 ENTREZGENE
  ENSRNOT00000078599.2 UniProtKB/Swiss-Prot
  ENSRNOT00000108788.1 UniProtKB/TrEMBL
  ENSRNOT00000108902 ENTREZGENE
  ENSRNOT00000108902.1 UniProtKB/TrEMBL
Gene3D-CATH 3.10.50.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Glycosidases UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7319171 IMAGE-MGC_LOAD
InterPro Chitinase_II UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Chitinase_insertion_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Glyco_hydro18_cat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Glycoside_hydrolase_SF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:89824 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:109420 IMAGE-MGC_LOAD
NCBI Gene 89824 ENTREZGENE
PANTHER CHITINASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR11177:SF202 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Glyco_hydro_18 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Chi3l1 PhenoGen
PROSITE GH18_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000053272 RatGTEx
SMART Glyco_18 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF51445 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF54556 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZNV1_RAT UniProtKB/TrEMBL
  A0A8I6AFN7 ENTREZGENE, UniProtKB/TrEMBL
  A4LA56_RAT UniProtKB/TrEMBL
  A6ICA6 ENTREZGENE, UniProtKB/TrEMBL
  A6ICA7 ENTREZGENE, UniProtKB/TrEMBL
  A6ICA8 ENTREZGENE, UniProtKB/TrEMBL
  CH3L1_RAT UniProtKB/Swiss-Prot
  Q5BJR6 ENTREZGENE
  Q9WTV1 ENTREZGENE
UniProt Secondary Q5BJR6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-09 Chi3l1  chitinase 3 like 1  Chi3l1  chitinase 3-like 1 (cartilage glycoprotein-39)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-01-09 Chi3l1  chitinase 3-like 1 (cartilage glycoprotein-39)  Chi3l1  chitinase 3-like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Chi3l1  chitinase 3-like 1    chitinase 3-like 1 (cartilage glycoprotein-39)  Name updated 1299863 APPROVED
2002-08-07 Chi3l1  chitinase 3-like 1 (cartilage glycoprotein-39)      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_disease human homolog is expressed in atherosclerotic plaques 634758