Chsy3 (chondroitin sulfate synthase 3) - Rat Genome Database

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Gene: Chsy3 (chondroitin sulfate synthase 3) Mus musculus
Analyze
Symbol: Chsy3
Name: chondroitin sulfate synthase 3
RGD ID: 1616679
MGI Page MGI
Description: Predicted to have glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity. Predicted to be involved in chondroitin sulfate biosynthetic process. Predicted to localize to Golgi cisterna membrane and integral component of membrane. Orthologous to human CHSY3 (chondroitin sulfate synthase 3); PARTICIPATES IN chondroitin sulfate biosynthetic pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-sulfonyldiphenol; benzo[a]pyrene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: 4833446K15Rik; AI662215; carbohydrate synthase 2; chondroitin glucuronyltransferase 3; chondroitin synthase 2; chSy-2; glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase II; N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase 3; N-acetylgalactosaminyltransferase 3
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391859,308,412 - 59,544,408 (+)NCBIGRCm39mm39
GRCm39 Ensembl1859,308,473 - 59,669,071 (+)Ensembl
GRCm381859,175,340 - 59,411,336 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1859,175,401 - 59,535,999 (+)EnsemblGRCm38mm10GRCm38
MGSCv371859,334,994 - 59,570,990 (+)NCBIGRCm37mm9NCBIm37
MGSCv361859,300,709 - 59,536,705 (+)NCBImm8
Celera1860,481,285 - 60,714,414 (+)NCBICelera
Cytogenetic Map18D3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:14681479   PMID:16141072   PMID:16141073   PMID:17145758   PMID:21267068   PMID:21873635  
PMID:30228991  


Genomics

Comparative Map Data
Chsy3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391859,308,412 - 59,544,408 (+)NCBIGRCm39mm39
GRCm39 Ensembl1859,308,473 - 59,669,071 (+)Ensembl
GRCm381859,175,340 - 59,411,336 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1859,175,401 - 59,535,999 (+)EnsemblGRCm38mm10GRCm38
MGSCv371859,334,994 - 59,570,990 (+)NCBIGRCm37mm9NCBIm37
MGSCv361859,300,709 - 59,536,705 (+)NCBImm8
Celera1860,481,285 - 60,714,414 (+)NCBICelera
Cytogenetic Map18D3NCBI
CHSY3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl5129,904,465 - 130,186,634 (+)EnsemblGRCh38hg38GRCh38
GRCh385129,903,384 - 130,186,637 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh375129,240,158 - 129,522,327 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365129,268,422 - 129,550,226 (+)NCBINCBI36hg18NCBI36
Celera5125,370,892 - 125,652,732 (+)NCBI
Cytogenetic Map5q23.3NCBI
HuRef5124,432,045 - 124,713,660 (+)NCBIHuRef
CHM1_15128,673,143 - 128,955,624 (+)NCBICHM1_1
Chsy3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21852,644,356 - 52,901,257 (+)NCBI
Rnor_6.0 Ensembl1854,243,949 - 54,496,585 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01854,243,626 - 54,497,475 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01853,477,339 - 53,731,655 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41854,963,517 - 55,273,226 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1850,748,557 - 51,001,455 (+)NCBICelera
Cytogenetic Map18q12.1NCBI
Chsy3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554152,748,777 - 2,991,782 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554152,748,776 - 2,994,041 (+)NCBIChiLan1.0ChiLan1.0
CHSY3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.15131,491,059 - 131,772,060 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v05125,319,738 - 125,601,102 (+)NCBIMhudiblu_PPA_v0panPan3
CHSY3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11118,621,196 - 18,855,018 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1118,620,781 - 18,854,177 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1117,420,827 - 17,654,322 (+)NCBI
ROS_Cfam_1.01119,375,694 - 19,642,226 (+)NCBI
UMICH_Zoey_3.11118,100,068 - 18,370,955 (+)NCBI
UNSW_CanFamBas_1.01117,935,119 - 18,202,405 (+)NCBI
UU_Cfam_GSD_1.01118,549,166 - 18,816,845 (+)NCBI
Chsy3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213141,374,905 - 141,626,875 (+)NCBI
SpeTri2.0NW_0049365042,948,878 - 2,952,518 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CHSY3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2132,535,360 - 132,801,187 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12132,536,085 - 132,803,476 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22137,866,436 - 138,011,589 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CHSY3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12332,803,714 - 33,088,720 (+)NCBI
Vero_WHO_p1.0NW_02366603444,921,259 - 45,206,662 (-)NCBI
Chsy3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477411,173,221 - 11,466,657 (-)NCBI

Position Markers
RH133228  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381859,411,061 - 59,411,240UniSTSGRCm38
MGSCv371859,570,715 - 59,570,894UniSTSGRCm37
Celera1860,714,139 - 60,714,318UniSTS
Cytogenetic Map18D3UniSTS
AI662215  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381859,411,063 - 59,411,154UniSTSGRCm38
MGSCv371859,570,717 - 59,570,808UniSTSGRCm37
Celera1860,714,141 - 60,714,232UniSTS
Cytogenetic Map18D3UniSTS
Whitehead/MRC_RH18771.95UniSTS
UniSTS:224960  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381859,222,070 - 59,222,260UniSTSGRCm38
MGSCv371859,381,724 - 59,381,914UniSTSGRCm37
Celera1860,528,149 - 60,528,339UniSTS
Cytogenetic Map18D3UniSTS
Chsy3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map18D3UniSTS
cM Map1833.93UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
27226723Tibw9_mtibia width 9, proximal, 16 week (mouse)18320000060800000Mouse
1558849W3q15_mweight 3 weeks QTL 15 (mouse)Not determined18504111961139571Mouse
1357603Mom3_mmodifier of Min 3 (mouse)Not determined181389696666965891Mouse
25823173Hrsq12_mhost response to SARS QTL 12, hemorrhage (mouse)182476282478296340Mouse
12904950Smmq3_msoleus muscle mass QTL 3 (mouse)182592381059923810Mouse
1301400Lmr13_mleishmaniasis resistance 13 (mouse)Not determined182797631361976451Mouse
4141857Mhysq5_mmale hybrid sterility QTL 5 (mouse)Not determined2799753761997672Mouse
1302163Bmd16_mbone mineral density 16 (mouse)Not determined182953484763534993Mouse
12880412V125Dq12_mvitamin D active form serum level QTL 12 (mouse)183010000064100000Mouse
1300685Scc5_mcolon tumor susceptibility 5 (mouse)Not determined183185541365855562Mouse
1357690Vtbt19_mvertebral trabecular bone trait 19 (mouse)Not determined183295797666958154Mouse
1301771Pcyts6_mplasmacytoma susceptibility 6 (mouse)Not determined183552556069525779Mouse
4142366Chlq10_mcirculating hormone level QTL 10 (mouse)Not determined183615795070158108Mouse
15039381Ltgq8_mliver triglyceride QTL 8 (mouse)183807349772073497Mouse
15039383Mvlq5_mmicrovesicular liver lesion QTL 5 (mouse)183807349772073497Mouse
15039384Liviq1_mliver inflammation QTL 1 (mouse)183807349772073497Mouse
15039386Mvlq4_mmacrovesicular liver lesion QTL 4 (mouse)183807349772073497Mouse
12050070Nabq2_mnasal bone morphology QTL 2 (mouse)183897060572970721Mouse
1357639Obsty4_mobesity 4 (mouse)Not determined183948686184620653Mouse
1301902Hrtfm4_mheart failure modifier 4 (mouse)Not determined184317804877178271Mouse
1301215Thcr_mT helper cell response (mouse)Not determined184499753768645706Mouse
12904745Carcdq2_mcardiac collagen deposition QTL 2 (mouse)184629021680290216Mouse
11039493Ltpr8d_mLeishmania tropica response 8d (mouse)184674183280741971Mouse
11039494Ltpr8b_mLeishmania tropica response 8b (mouse)184674183280741971Mouse
27226720Tibw5_mtibia width 5, proximal, 10 week (mouse)185030000062500000Mouse
1357630Tgq1_mtriglyceride QTL 1 (mouse)Not determined185091908584919240Mouse
11252137Modvl5_mmodifier of vacuolated lens 5 (mouse)185091908584919240Mouse
1302099Hdlq30_mHDL QTL 30 (mouse)Not determined185153522985535397Mouse
10412244Par5_mpulmonary adenoma resistance 5 (mouse)Not determined185153522985535397Mouse
1301853Heal9_mwound healing/regeneration 9 (mouse)Not determined185267220586672345Mouse
1302050Radpf4_mradiation pulmonary fibrosis 4 (mouse)Not determined185283308468645706Mouse
4142443Pgis1_mproteoglycan induced spondylitis 1 (mouse)Not determined185315795076826598Mouse
4141431Msmr2_mMSM lymphoma resistance 2 (mouse)Not determined5484280161105798Mouse
1301500Szs4_mseizure susceptibility 4 (mouse)Not determined185484280185496018Mouse
12880410V125Dq13_mvitamin D active form serum level QTL 13 (mouse)185630000090300000Mouse
12880430Fgf23lq4_mFGF23 serum level QTL 4 (mouse)185630000090300000Mouse
10412183Sstapa2_mSuseptibility to Staphylococus aureus infection 2 (mouse)Not determined185666155866819414Mouse
12880428V125Dq14_mvitamin D active form serum level QTL 14 (mouse)185730000090702639Mouse
1301353Lbw6_mlupus NZB x NZW 6 (mouse)Not determined185742926790702639Mouse
4141132Eae18_mexperimental allergic encephalomyelitis susceptibility 18 (mouse)Not determined5745748782586603Mouse
4140971Mbmq1_mmale body mass QTL 1 (mouse)Not determined5785721090702639Mouse
12910791Pwgrq8_mpre-weaning growth rate QTL 8 (mouse)185788832769216071Mouse
11039492Ltpr8a_mLeishmania tropica response 8a (mouse)185904702190702639Mouse
11039495Ltpr8c_mLeishmania tropica response 8c (mouse)185904702190702639Mouse
11049564Lmr29_mleishmaniasis resistance 29 (mouse)185904702190702639Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:43
Count of miRNA genes:42
Interacting mature miRNAs:42
Transcripts:ENSMUST00000080721
Prediction methods:Miranda, Rnahybrid
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.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000080721   ⟹   ENSMUSP00000079546
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1859,175,650 - 59,411,336 (+)Ensembl
RefSeq Acc Id: ENSMUST00000237594
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1859,175,401 - 59,182,021 (+)Ensembl
RefSeq Acc Id: ENSMUST00000238155   ⟹   ENSMUSP00000158180
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1859,175,453 - 59,535,999 (+)Ensembl
RefSeq Acc Id: NM_001081328   ⟹   NP_001074797
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391859,308,412 - 59,544,408 (+)NCBI
GRCm381859,175,340 - 59,411,336 (+)ENTREZGENE
MGSCv371859,334,994 - 59,570,990 (+)RGD
Celera1860,481,285 - 60,714,414 (+)RGD
cM Map18 ENTREZGENE
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001074797   ⟸   NM_001081328
- UniProtKB: Q5DTK1 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000158180   ⟸   ENSMUST00000238155
RefSeq Acc Id: ENSMUSP00000079546   ⟸   ENSMUST00000080721

Promoters
RGD ID:13677874
Promoter ID:EPDNEW_M23086
Type:initiation region
Name:Chsy3_1
Description:Mus musculus chondroitin sulfate synthase 3 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381859,175,397 - 59,175,457EPDNEW
RGD ID:6829145
Promoter ID:MM_KWN:25371
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   Kidney,   Liver,   Lung
Transcripts:NM_001081328
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361859,334,566 - 59,335,227 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1926173 AgrOrtholog
Ensembl Genes ENSMUSG00000058152 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000079546 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000158180 UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000080721 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000238155 UniProtKB/Swiss-Prot
Gene3D-CATH 3.90.550.10 UniProtKB/Swiss-Prot
InterPro Chond_GalNAc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nucleotide-diphossugar_trans UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:78923 UniProtKB/Swiss-Prot
MGD MGI:1926173 ENTREZGENE
NCBI Gene 78923 ENTREZGENE
Pfam CHGN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Chsy3 PhenoGen
Superfamily-SCOP SSF53448 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt CHSS3_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  Q8BRJ2_MOUSE UniProtKB/TrEMBL
  Q8BRQ5_MOUSE UniProtKB/TrEMBL
  Q8CEL5_MOUSE UniProtKB/TrEMBL
UniProt Secondary B2RXU7 UniProtKB/Swiss-Prot