Chst1 (carbohydrate sulfotransferase 1) - Rat Genome Database

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Gene: Chst1 (carbohydrate sulfotransferase 1) Mus musculus
Analyze
Symbol: Chst1
Name: carbohydrate sulfotransferase 1
RGD ID: 1317744
MGI Page MGI
Description: Predicted to enable N-acetylglucosamine 6-O-sulfotransferase activity and keratan sulfotransferase activity. Predicted to be involved in N-acetylglucosamine metabolic process; galactose metabolic process; and keratan sulfate biosynthetic process. Predicted to act upstream of or within carbohydrate metabolic process and inflammatory response. Predicted to be located in Golgi membrane. Predicted to be integral component of membrane. Predicted to be active in trans-Golgi network. Is expressed in eye; limb; and nervous system. Orthologous to human CHST1 (carbohydrate sulfotransferase 1).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 2610008E20Rik; AW125896; C6S; C6ST; carbohydrate (keratan sulfate Gal-6) sulfotransferase 1; galactose/N-acetylglucosamine/N-acetylglucosamine 6-O-sulfotransferase 1; GST-; GST-1; Gst1; keratan sulfate Gal-6 sulfotransferase; KS6ST; KSGA; KSGAL6ST; KSST; N-acetylglucosamine-6-O-sulfotransferase 1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39292,429,978 - 92,445,597 (+)NCBIGRCm39mm39
GRCm39 Ensembl292,430,052 - 92,445,595 (+)Ensembl
GRCm38292,599,632 - 92,615,252 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl292,599,707 - 92,615,250 (+)EnsemblGRCm38mm10GRCm38
MGSCv37292,439,864 - 92,455,409 (+)NCBIGRCm37mm9NCBIm37
MGSCv36292,412,616 - 92,416,089 (+)NCBImm8
Celera293,994,573 - 94,009,859 (+)NCBICelera
Cytogenetic Map2E1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11181564   PMID:12477932   PMID:14681479   PMID:15489334   PMID:16141072   PMID:16141073   PMID:16227985   PMID:16772045  
PMID:16829211   PMID:19554387   PMID:21267068   PMID:21677750   PMID:21873635   PMID:23254996   PMID:23880769   PMID:24152993   PMID:26297811   PMID:26362733   PMID:28219675   PMID:28942923  
PMID:29659839  


Genomics

Comparative Map Data
Chst1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39292,429,978 - 92,445,597 (+)NCBIGRCm39mm39
GRCm39 Ensembl292,430,052 - 92,445,595 (+)Ensembl
GRCm38292,599,632 - 92,615,252 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl292,599,707 - 92,615,250 (+)EnsemblGRCm38mm10GRCm38
MGSCv37292,439,864 - 92,455,409 (+)NCBIGRCm37mm9NCBIm37
MGSCv36292,412,616 - 92,416,089 (+)NCBImm8
Celera293,994,573 - 94,009,859 (+)NCBICelera
Cytogenetic Map2E1NCBI
CHST1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381145,647,689 - 45,665,622 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1145,647,689 - 45,665,622 (-)EnsemblGRCh38hg38GRCh38
GRCh371145,669,239 - 45,687,172 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361145,627,003 - 45,643,748 (-)NCBINCBI36hg18NCBI36
Build 341145,627,002 - 45,643,748NCBI
Celera1145,817,781 - 45,834,528 (-)NCBI
Cytogenetic Map11p11.2NCBI
HuRef1145,377,231 - 45,382,150 (-)NCBIHuRef
CHM1_11145,666,565 - 45,684,532 (-)NCBICHM1_1
T2T-CHM13v2.01145,803,398 - 45,821,330 (-)NCBI
Chst1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2378,552,059 - 78,574,736 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl378,548,525 - 78,574,883 (+)Ensembl
Rnor_6.0381,441,785 - 81,512,829 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl381,498,022 - 81,512,807 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0388,201,573 - 88,216,380 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4376,994,089 - 77,008,874 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1376,890,516 - 76,905,302 (+)NCBI
Celera377,761,117 - 77,775,904 (+)NCBICelera
Cytogenetic Map3q31NCBI
Chst1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554222,269,791 - 2,274,714 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554222,269,791 - 2,274,714 (+)NCBIChiLan1.0ChiLan1.0
CHST1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11146,096,894 - 46,106,729 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01145,604,605 - 45,621,332 (-)NCBIMhudiblu_PPA_v0panPan3
CHST1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11843,734,469 - 43,739,640 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1842,451,116 - 42,467,610 (+)NCBI
ROS_Cfam_1.01844,378,514 - 44,395,022 (+)NCBI
ROS_Cfam_1.0 Ensembl1844,378,537 - 44,395,019 (+)Ensembl
UMICH_Zoey_3.11843,863,268 - 43,879,759 (+)NCBI
UNSW_CanFamBas_1.01843,416,770 - 43,433,264 (+)NCBI
UU_Cfam_GSD_1.01844,148,886 - 44,165,391 (+)NCBI
Chst1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494721,206,205 - 21,212,818 (+)NCBI
SpeTri2.0NW_0049365623,318,821 - 3,324,460 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CHST1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl216,772,208 - 16,789,031 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1216,772,210 - 16,789,031 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2218,178,340 - 18,195,423 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CHST1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1119,678,972 - 19,696,466 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl119,694,243 - 19,695,478 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666038116,949,320 - 116,966,120 (+)NCBIVero_WHO_p1.0
Chst1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247672,798,715 - 2,803,082 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046247672,788,208 - 2,803,093 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH133864  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38292,614,845 - 92,615,053UniSTSGRCm38
MGSCv37292,455,002 - 92,455,210UniSTSGRCm37
Celera294,009,452 - 94,009,660UniSTS
Cytogenetic Map2D-E1UniSTS
AW125896  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38292,614,776 - 92,614,886UniSTSGRCm38
MGSCv37292,454,933 - 92,455,043UniSTSGRCm37
Celera294,009,383 - 94,009,493UniSTS
Cytogenetic Map2D-E1UniSTS
Whitehead/MRC_RH21283.02UniSTS
Chst1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38292,614,681 - 92,615,106UniSTSGRCm38
MGSCv37292,454,838 - 92,455,263UniSTSGRCm37
Celera294,009,288 - 94,009,713UniSTS
Cytogenetic Map2D-E1UniSTS
cM Map2 UniSTS
Chst1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38292,614,728 - 92,614,795UniSTSGRCm38
MGSCv37292,454,885 - 92,454,952UniSTSGRCm37
Celera294,009,335 - 94,009,402UniSTS
Cytogenetic Map2D-E1UniSTS


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301769Orgwq2_morgan weight QTL 2 (mouse)Not determined2388712693421651Mouse
1357881Estoq1_membryo survival total QTL 1 (mouse)Not determined220897778118894840Mouse
1357454Kidq1_mkidney weight QTL 1 (mouse)Not determined220897778118894840Mouse
1357436Splq1_mspleen weight QTL 1 (mouse)Not determined220897778118894840Mouse
39128209Lwq14_mliver weight QTL 14 (mouse)220897778118894840Mouse
1558899Egq1_mearly growth QTL 1 (mouse)Not determined220897778118894840Mouse
1558966W10q9_mweight 10 weeks QTL 9 (mouse)Not determined220897778118894840Mouse
1558915W3q1_mweight 3 weeks QTL 1 (mouse)Not determined220897778118894840Mouse
1558738W6q1_mweight 6 weeks QTL 1 (mouse)Not determined220897778118894840Mouse
1357681Hrtq1_mheart weight QTL 1 (mouse)Not determined220897778118894840Mouse
1302174Dssc2_mdextran sodium sulfate induced colitis QTL2 (mouse)Not determined224224632148700377Mouse
4141854T2dm2sa_mtype 2 diabetes mellitus 2 in SMXA RI mice (mouse)Not determined229307947148374934Mouse
4141236Hbnr5_mHeligmosomoides bakeri nematode resistance 5 (mouse)Not determined31214567105143570Mouse
1301109Dntcs2_mdental caries susceptibility 2 (mouse)Not determined240885493114910165Mouse
1301344Lith1_mlithogenic gene 1 (mouse)Not determined245347635145312647Mouse
1357577Trmq3_mT cell ratio modifier QTL 3 (mouse)Not determined260520612119355518Mouse
13824983Vclq1_mcurvilinear velocity QTL 1 (mouse)261830344136841920Mouse
10044002Hdl7_mHDL level 7 (mouse)Not determined26300595497006113Mouse
10053681Lith24_mlithogenic gene 24 (mouse)Not determined26300595497006113Mouse
1301405Etohr_methanol response acute (mouse)Not determined26300595497006113Mouse
1301703Bomd3_mbone mineral density 3 (mouse)Not determined26300595497006113Mouse
1300662Etohila_methanol induced locomotor activity (mouse)Not determined26300595497006113Mouse
1301048Actre2_mactivity response to ethanol 2 (mouse)Not determined26300595497006113Mouse
1301873Hsl1_mhyperoxia susceptibility locus 1 (mouse)Not determined26357015497570301Mouse
5491197Mobq5_mmultigenic obesity QTL 5 (mouse)Not determined265269746162518926Mouse
1301660Iba1_minduction of brown adipocytes 1 (mouse)Not determined267647887101648142Mouse
13463482Mchq17_mmean corpuscular hemoglobin QTL 17 (mouse)267647887101648142Mouse
1301882Etohc2_methanol consumption 2 (mouse)Not determined268724269102724407Mouse
1301948Elsgp3_melevated serum gp70 3 (mouse)Not determined268724269102724407Mouse
4142088Parms1_mpatched associated RMS 1 (mouse)Not determined74524117114123532Mouse
11528549Sluc31_msusceptibility to lung cancer 31 (mouse)274524117129213005Mouse
1301374Cplaq7_mcircadian period of locomotor activity 7 (mouse)Not determined276421483110421651Mouse
4141657Mohg1_mmodifier of hg 1 (mouse)Not determined276678758103095823Mouse
10043894Bw22_mbody weight QTL 22 (mouse)Not determined280895334114895334Mouse
15092054Egrme5_mearly growth rate, maternal effect 5 (mouse)282190187118004745Mouse
1558901Skmw8_mskeletal muscle weight 8 (mouse)Not determined284008488118008593Mouse
4141155Plast2b_mplasma plant sterol 2b (mouse)Not determined284013198148522175Mouse
10412082Hylaq1_mHyperlocomotor activity related QTL 1 (mouse)Not determined284013198148667470Mouse
5491196Mobq6_mmultigenic obesity QTL 6 (mouse)Not determined285724269180896594Mouse
11049565Lmr28g_mleishmaniasis resistance 28g (mouse)286095716120095823Mouse
11038697Ltpr2d_mLeishmania tropica response 2d (mouse)286095716120095823Mouse
11038698Ltpr2c_mLeishmania tropica response 2c (mouse)286095716120095823Mouse
1300852Lmr14_mleishmaniasis resistance 14 (mouse)Not determined286095716120095823Mouse
1301834Bits1_mbitterness sensitivity 1 (mouse)Not determined287440643121440778Mouse
11532731Sluc31a_msusceptibility to lung cancer 31a (mouse)288015003122015170Mouse
4142223Femwf4_mfemur work to failure 4 (mouse)Not determined88143423122143570Mouse
1301098Cd8mts3_mCD8 memory T cell subset 3 (mouse)Not determined291089974125090104Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:405
Count of miRNA genes:269
Interacting mature miRNAs:306
Transcripts:ENSMUST00000065797
Prediction methods: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.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000065797   ⟹   ENSMUSP00000064246
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl292,430,052 - 92,445,595 (+)Ensembl
GRCm38.p6 Ensembl292,599,707 - 92,615,250 (+)Ensembl
RefSeq Acc Id: NM_001356552   ⟹   NP_001343481
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39292,430,052 - 92,445,597 (+)NCBI
GRCm38292,599,707 - 92,615,252 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001356553   ⟹   NP_001343482
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39292,431,462 - 92,445,597 (+)NCBI
GRCm38292,601,117 - 92,615,252 (+)NCBI
Sequence:
RefSeq Acc Id: NM_023850   ⟹   NP_076339
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39292,430,052 - 92,445,597 (+)NCBI
GRCm38292,599,707 - 92,615,252 (+)NCBI
MGSCv37292,439,864 - 92,455,409 (+)RGD
Celera293,994,573 - 94,009,859 (+)RGD
cM Map2 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_030252202   ⟹   XP_030108062
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39292,429,978 - 92,445,597 (+)NCBI
GRCm38292,599,632 - 92,615,252 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030252203   ⟹   XP_030108063
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39292,429,978 - 92,445,597 (+)NCBI
GRCm38292,599,632 - 92,615,252 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_076339   ⟸   NM_023850
- Peptide Label: precursor
- UniProtKB: Q9EQC0 (UniProtKB/Swiss-Prot),   Q3UY35 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_030108062   ⟸   XM_030252202
- Peptide Label: isoform X1
RefSeq Acc Id: XP_030108063   ⟸   XM_030252203
- Peptide Label: isoform X1
RefSeq Acc Id: NP_001343481   ⟸   NM_001356552
- Peptide Label: precursor
RefSeq Acc Id: NP_001343482   ⟸   NM_001356553
- Peptide Label: precursor
RefSeq Acc Id: ENSMUSP00000064246   ⟸   ENSMUST00000065797
Protein Domains
Sulfotransfer_1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9EQC0-F1-model_v2 AlphaFold Q9EQC0 1-411 view protein structure

Promoters
RGD ID:6831038
Promoter ID:MM_KWN:30621
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain
Transcripts:UC008LFM.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36292,451,341 - 92,451,841 (+)MPROMDB
RGD ID:6877978
Promoter ID:EPDNEW_M2439
Type:initiation region
Name:Chst1_1
Description:Mus musculus carbohydrate (keratan sulfate Gal-6) sulfotransferase1 , transcript variant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M2440  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38292,599,712 - 92,599,772EPDNEW
RGD ID:6877980
Promoter ID:EPDNEW_M2440
Type:initiation region
Name:Chst1_2
Description:Mus musculus carbohydrate (keratan sulfate Gal-6) sulfotransferase1 , transcript variant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M2439  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38292,609,508 - 92,609,568EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1924219 AgrOrtholog
Ensembl Genes ENSMUSG00000027221 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000064246 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000065797 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.50.300 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Carbohydrate_sulfotransferase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sulfotransferase_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:76969 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:1924219 ENTREZGENE
NCBI Gene 76969 ENTREZGENE
Pfam Sulfotransfer_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Chst1 PhenoGen
PIRSF Carbohydrate_sulfotransferase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt CHST1_MOUSE UniProtKB/Swiss-Prot
  Q3UY35 ENTREZGENE, UniProtKB/TrEMBL
  Q9EQC0 ENTREZGENE
UniProt Secondary Q9D0K5 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-10-09 Chst1  carbohydrate sulfotransferase 1    carbohydrate (keratan sulfate Gal-6) sulfotransferase 1  Symbol and/or name change 5135510 APPROVED