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; YKL-40; YKL40
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81348,193,839 - 48,201,822 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1348,193,800 - 48,201,825 (+)EnsemblGRCr8
mRatBN7.21345,641,802 - 45,649,787 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1345,641,802 - 45,649,787 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1348,249,911 - 48,257,861 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01349,537,967 - 49,545,918 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01346,802,803 - 46,810,792 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01351,022,844 - 51,030,797 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1351,022,681 - 51,030,802 (+)Ensemblrn6Rnor6.0
Rnor_5.01356,074,912 - 56,086,477 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41347,139,658 - 47,147,591 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1345,969,872 - 45,977,855 (+)NCBICelera
RGSC_v3.11347,155,099 - 47,161,151 (+)NCBI
Cytogenetic Map13q13NCBI
JBrowse:




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)
alpha-Zearalanol  (EXP)
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)
Dibutyl phosphate  (ISO)
dimethylarsinic acid  (ISO)
dioxygen  (EXP,ISO)
diuron  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
ethanol  (ISO)
etoposide  (ISO)
fentanyl  (EXP)
fulvestrant  (ISO)
furan  (EXP)
glycochenodeoxycholic acid  (ISO)
glycocholic acid  (ISO)
glycodeoxycholic acid  (ISO)
hexadecanoic acid  (ISO)
indometacin  (ISO)
iron atom  (ISO)
iron(0)  (ISO)
isotretinoin  (ISO)
ketamine  (EXP)
Mesaconitine  (EXP)
methimazole  (EXP)
methylmercury chloride  (EXP,ISO)
naled  (ISO)
naphthalene  (ISO)
nefazodone  (ISO)
nickel dichloride  (ISO)
nitrofen  (EXP)
okadaic acid  (ISO)
ozone  (ISO)
p-menthan-3-ol  (EXP)
paclitaxel  (EXP)
paracetamol  (ISO)
paraquat  (EXP,ISO)
pentanal  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP)
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)
triadimefon  (EXP,ISO)
tributylstannane  (EXP)
trichostatin A  (ISO)
triclosan  (ISO)
triphenyl phosphate  (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

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   PMID:38634621  


Genomics

Comparative Map Data
Chi3l1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81348,193,839 - 48,201,822 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1348,193,800 - 48,201,825 (+)EnsemblGRCr8
mRatBN7.21345,641,802 - 45,649,787 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1345,641,802 - 45,649,787 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1348,249,911 - 48,257,861 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01349,537,967 - 49,545,918 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01346,802,803 - 46,810,792 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01351,022,844 - 51,030,797 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1351,022,681 - 51,030,802 (+)Ensemblrn6Rnor6.0
Rnor_5.01356,074,912 - 56,086,477 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41347,139,658 - 47,147,591 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1345,969,872 - 45,977,855 (+)NCBICelera
RGSC_v3.11347,155,099 - 47,161,151 (+)NCBI
Cytogenetic Map13q13NCBI
CHI3L1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381203,178,931 - 203,186,704 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1203,178,931 - 203,186,796 (-)Ensemblhg38GRCh38
GRCh371203,148,059 - 203,155,832 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361201,414,682 - 201,422,545 (-)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm381134,182,156 - 134,190,031 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1134,182,176 - 134,190,181 (+)Ensemblmm10GRCm38
MGSCv371136,078,981 - 136,086,608 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
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 (-)Ensembl
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 (-)EnsemblpanPan2panpan1.1
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 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha782,048 - 88,664 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0736,653 - 43,433 (+)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (+)EnsemblSpeTri2.0 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 (-)EnsemblsusScr11Sscrofa11.1
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 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248077,655,777 - 7,664,484 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Chi3l1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1101,496,222 - 1,504,156 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Chi3l1
86 total Variants
miRNA Target Status (No longer updated)

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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10755495Bp387Blood pressure QTL 3873.78arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133721624190057603Rat
9589141Insul28Insulin level QTL 2810.820.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)131186625456866254Rat
6893344Cm79Cardiac mass QTL 791.50.04heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)134627292251216694Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1338975045103588154Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133992469384924693Rat
61391Bp5Blood pressure QTL 55.6arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)132485392569853925Rat
4889861Pur29Proteinuria QTL 2913.80.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)133996821183286298Rat
2317040Aia21Adjuvant induced arthritis QTL 212.75joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)131238432057384320Rat
631645Bp121Blood pressure QTL 1213.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131746828262468282Rat
2317046Aia8Adjuvant induced arthritis QTL 83.9700000286102295joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)131238432057384320Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)13742179187286911Rat
1331784Bp222Blood pressure QTL 2222.944arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)132433543255601132Rat
61340Bp25Blood pressure QTL 254.20.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133708798382087983Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13600200888706694Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)134098358585983585Rat
724564Uae11Urinary albumin excretion QTL 115.7urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)134735425894285672Rat
2302275Gluco37Glucose level QTL 373.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)131244842148744906Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1321120177109350286Rat
4145117Mcs27Mammary carcinoma susceptibility QTL 270.0001mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)134599007750392939Rat
1558644Cm45Cardiac mass QTL 453.60.002heart mass (VT:0007028)heart wet weight (CMO:0000069)132624480871244808Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133379409678794096Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133992469384924693Rat
2303563Bw89Body weight QTL 896body mass (VT:0001259)body weight (CMO:0000012)133483494779834947Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1311081740103588154Rat
2301962Cm72Cardiac mass QTL 724.12heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)133379409660914504Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13600200888706694Rat
12879477Bp401Blood pressure QTL 401arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133981472684814726Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133996821184968211Rat
6893338Cm76Cardiac mass QTL 7600.99heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)132624480871244808Rat
12879472Bp399Blood pressure QTL 399arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134778041850392939Rat
11530006Niddm72Non-insulin dependent diabetes mellitus QTL 720.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)133828629883286298Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131103588154Rat
9589164Gluco66Glucose level QTL 666.670.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)131771133662711336Rat
7411662Foco29Food consumption QTL 2920.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)131186625456866254Rat

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

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 157 91 90 59 92 59 6 352 192 11 135 77 90 31 14 14

Sequence


Ensembl Acc Id: ENSRNOT00000078599   ⟹   ENSRNOP00000074871
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1348,193,800 - 48,201,821 (+)Ensembl
mRatBN7.2 Ensembl1345,641,802 - 45,649,787 (+)Ensembl
Rnor_6.0 Ensembl1351,022,681 - 51,030,802 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000108788   ⟹   ENSRNOP00000079988
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1348,194,403 - 48,201,822 (+)Ensembl
mRatBN7.2 Ensembl1345,642,368 - 45,649,787 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000108902   ⟹   ENSRNOP00000091690
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1348,194,026 - 48,201,820 (+)Ensembl
mRatBN7.2 Ensembl1345,642,097 - 45,649,787 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000136323   ⟹   ENSRNOP00000105052
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1348,193,850 - 48,201,825 (+)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:
Ensembl Acc Id: ENSRNOP00000074871   ⟸   ENSRNOT00000078599
Ensembl Acc Id: ENSRNOP00000091690   ⟸   ENSRNOT00000108902
Ensembl Acc Id: ENSRNOP00000079988   ⟸   ENSRNOT00000108788
Ensembl Acc Id: ENSRNOP00000105052   ⟸   ENSRNOT00000136323
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
Ensembl Transcript ENSRNOT00000078599 ENTREZGENE
  ENSRNOT00000078599.2 UniProtKB/Swiss-Prot
  ENSRNOT00000108902 ENTREZGENE
Gene3D-CATH 3.10.50.10 UniProtKB/Swiss-Prot
  Glycosidases UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7319171 IMAGE-MGC_LOAD
InterPro Chitinase_II UniProtKB/Swiss-Prot
  Chitinase_insertion_sf UniProtKB/Swiss-Prot
  Glyco_hydro18_cat UniProtKB/Swiss-Prot
  Glycoside_hydrolase_SF UniProtKB/Swiss-Prot
  Glycosyl_Hydrlase_18 UniProtKB/Swiss-Prot
KEGG Report rno:89824 UniProtKB/Swiss-Prot
MGC_CLONE MGC:109420 IMAGE-MGC_LOAD
NCBI Gene 89824 ENTREZGENE
PANTHER CHITINASE UniProtKB/Swiss-Prot
  PTHR11177:SF202 UniProtKB/Swiss-Prot
Pfam Glyco_hydro_18 UniProtKB/Swiss-Prot
PhenoGen Chi3l1 PhenoGen
PROSITE GH18_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000053272 RatGTEx
SMART Glyco_18 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF51445 UniProtKB/Swiss-Prot
  SSF54556 UniProtKB/Swiss-Prot
UniProt A0A8I5ZNV1_RAT UniProtKB/TrEMBL
  A0A8I6AFN7 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LPV1_RAT 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