CHI3L1 (chitinase 3 like 1) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: CHI3L1 (chitinase 3 like 1) Canis lupus familiaris
Analyze
Symbol: CHI3L1
Name: chitinase 3 like 1
RGD ID: 12286886
Description: ENCODES a protein that exhibits chitin binding (ortholog); chitinase activity (ortholog); INVOLVED IN cellular response to interleukin-1 (ortholog); cellular response to tumor necrosis factor (ortholog); inflammatory response (ortholog); ASSOCIATED WITH acute myeloid leukemia (ortholog); arteriosclerosis (ortholog); asthma (ortholog); FOUND IN cytoplasm (ortholog); endoplasmic reticulum (ortholog); extracellular space (ortholog)
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: CHIL1; chitinase-3-like protein 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:23558346   PMID:30032202   PMID:31565896  


Genomics

Comparative Map Data
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
(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
(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
(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
(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
61 total Variants

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 reproductive system respiratory system adipose tissue
High
Medium 1 5 1
Low 3 1 17 3 5 3 5 12 5 1
Below cutoff 2 4 5 3 1 3 6 8 4

Sequence


RefSeq Acc Id: ENSCAFT00000016313   ⟹   ENSCAFP00000015089
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl726,316 - 33,427 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000073770   ⟹   ENSCAFP00000058655
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl726,499 - 33,427 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845025239   ⟹   ENSCAFP00845019852
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl736,715 - 43,899 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845025252   ⟹   ENSCAFP00845019863
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl736,728 - 43,894 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845025258   ⟹   ENSCAFP00845019870
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl736,981 - 43,899 (+)Ensembl
RefSeq Acc Id: NM_001177807   ⟹   NP_001171278
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1726,316 - 32,931 (+)NCBI
Dog10K_Boxer_Tasha782,048 - 88,664 (+)NCBI
ROS_Cfam_1.0736,798 - 43,414 (+)NCBI
UMICH_Zoey_3.1725,021 - 31,646 (+)NCBI
UNSW_CanFamBas_1.07134,620 - 141,244 (+)NCBI
UU_Cfam_GSD_1.07157,023 - 163,649 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038670530   ⟹   XP_038526458
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0736,653 - 43,433 (+)NCBI
RefSeq Acc Id: NP_001171278   ⟸   NM_001177807
- Peptide Label: precursor
- UniProtKB: D3YJ60 (UniProtKB/TrEMBL),   A0A8C0PTT2 (UniProtKB/TrEMBL),   F1PU37 (UniProtKB/TrEMBL),   A0A8C0KP44 (UniProtKB/TrEMBL),   A0A8I3NII0 (UniProtKB/TrEMBL),   A0A8P0PQ59 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000058655   ⟸   ENSCAFT00000073770
RefSeq Acc Id: ENSCAFP00000015089   ⟸   ENSCAFT00000016313
RefSeq Acc Id: XP_038526458   ⟸   XM_038670530
- Peptide Label: isoform X1
RefSeq Acc Id: ENSCAFP00845019852   ⟸   ENSCAFT00845025239
RefSeq Acc Id: ENSCAFP00845019863   ⟸   ENSCAFT00845025252
RefSeq Acc Id: ENSCAFP00845019870   ⟸   ENSCAFT00845025258
Protein Domains
GH18

Promoters
RGD ID:13683852
Promoter ID:EPDNEW_C1922
Type:single initiation site
Name:CHI3L1_1
Description:chitinase 3 like 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1726,234 - 26,294EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000010274 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030003216 UniProtKB/TrEMBL
  ENSCAFG00040002302 UniProtKB/TrEMBL
  ENSCAFG00845014118 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000016313.5 UniProtKB/TrEMBL
  ENSCAFT00000073770.2 UniProtKB/TrEMBL
  ENSCAFT00000106853.1 UniProtKB/TrEMBL
  ENSCAFT00030005999.1 UniProtKB/TrEMBL
  ENSCAFT00030006024.1 UniProtKB/TrEMBL
  ENSCAFT00040004372.1 UniProtKB/TrEMBL
  ENSCAFT00040004393.1 UniProtKB/TrEMBL
  ENSCAFT00845025239 ENTREZGENE
  ENSCAFT00845025239.1 UniProtKB/TrEMBL
  ENSCAFT00845025252.1 UniProtKB/TrEMBL
  ENSCAFT00845025258.1 UniProtKB/TrEMBL
Gene3D-CATH 3.10.50.10 UniProtKB/TrEMBL
  Glycosidases UniProtKB/TrEMBL
InterPro Chitinase_II UniProtKB/TrEMBL
  Chitinase_insertion_sf UniProtKB/TrEMBL
  Glyco_hydro18_cat UniProtKB/TrEMBL
  Glycoside_hydrolase_SF UniProtKB/TrEMBL
KEGG Report cfa:490222 UniProtKB/TrEMBL
NCBI Gene CHI3L1 ENTREZGENE
PANTHER CHITINASE UniProtKB/TrEMBL
  PTHR11177:SF202 UniProtKB/TrEMBL
Pfam Glyco_hydro_18 UniProtKB/TrEMBL
PROSITE GH18_2 UniProtKB/TrEMBL
  PROKAR_LIPOPROTEIN UniProtKB/TrEMBL
SMART Glyco_18 UniProtKB/TrEMBL
Superfamily-SCOP SSF51445 UniProtKB/TrEMBL
  SSF54556 UniProtKB/TrEMBL
UniProt A0A8C0KP44 ENTREZGENE
  A0A8C0M665_CANLF UniProtKB/TrEMBL
  A0A8C0PTT2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0Q5K7_CANLF UniProtKB/TrEMBL
  A0A8I3NGT3_CANLF UniProtKB/TrEMBL
  A0A8I3NII0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0PQ59 ENTREZGENE, UniProtKB/TrEMBL
  D3YJ60 ENTREZGENE, UniProtKB/TrEMBL
  F1PU37 ENTREZGENE
UniProt Secondary F1PU37 UniProtKB/TrEMBL
VGNC ID VGNC:39213 ENTREZGENE