Chst9 (carbohydrate sulfotransferase 9) - Rat Genome Database

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Gene: Chst9 (carbohydrate sulfotransferase 9) Rattus norvegicus
Analyze
Symbol: Chst9
Name: carbohydrate sulfotransferase 9
RGD ID: 1307302
Description: Predicted to enable N-acetylgalactosamine 4-O-sulfotransferase activity. Predicted to be involved in proteoglycan biosynthetic process and sulfur compound metabolic process. Predicted to be located in Golgi membrane. Predicted to be integral component of membrane. Orthologous to human CHST9 (carbohydrate sulfotransferase 9); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; acrylamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 9; LOC291770
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
mRatBN7.2186,576,391 - 6,851,078 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl186,577,348 - 6,850,868 (-)Ensembl
Rnor_6.0186,833,408 - 7,115,815 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl186,834,365 - 7,081,356 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0186,790,093 - 7,070,242 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4186,698,623 - 6,959,482 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1186,698,481 - 6,718,934 (-)NCBI
Celera186,597,391 - 6,839,012 (-)NCBICelera
Cytogenetic Map18p13NCBI
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

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:11139592   PMID:11445554   PMID:12944377  


Genomics

Comparative Map Data
Chst9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2186,576,391 - 6,851,078 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl186,577,348 - 6,850,868 (-)Ensembl
Rnor_6.0186,833,408 - 7,115,815 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl186,834,365 - 7,081,356 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0186,790,093 - 7,070,242 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4186,698,623 - 6,959,482 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1186,698,481 - 6,718,934 (-)NCBI
Celera186,597,391 - 6,839,012 (-)NCBICelera
Cytogenetic Map18p13NCBI
CHST9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381826,906,481 - 27,185,308 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1826,906,481 - 27,185,308 (-)EnsemblGRCh38hg38GRCh38
GRCh371824,486,445 - 24,765,272 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361822,749,612 - 23,019,279 (-)NCBINCBI36hg18NCBI36
Build 341822,749,594 - 23,019,177NCBI
Celera1821,305,768 - 21,575,711 (-)NCBI
Cytogenetic Map18q11.2NCBI
HuRef1821,345,827 - 21,616,441 (-)NCBIHuRef
CHM1_11824,423,332 - 24,692,302 (-)NCBICHM1_1
T2T-CHM13v2.01827,100,538 - 27,379,358 (-)NCBI
Chst9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391815,584,830 - 15,893,214 (-)NCBIGRCm39mm39
GRCm39 Ensembl1815,584,981 - 15,893,214 (-)Ensembl
GRCm381815,451,773 - 15,760,157 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1815,451,924 - 15,760,157 (-)EnsemblGRCm38mm10GRCm38
MGSCv371815,610,684 - 15,876,555 (-)NCBIGRCm37mm9NCBIm37
MGSCv361815,595,193 - 15,861,064 (-)NCBImm8
Celera1815,675,118 - 15,930,103 (-)NCBICelera
Cytogenetic Map18A1NCBI
Chst9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540214,894,169 - 15,114,731 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540214,892,707 - 15,115,846 (-)NCBIChiLan1.0ChiLan1.0
CHST9
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11823,777,767 - 24,047,730 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1823,777,767 - 24,048,513 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01820,173,750 - 20,443,360 (-)NCBIMhudiblu_PPA_v0panPan3
CHST9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1761,612,085 - 61,806,726 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl761,571,574 - 61,804,715 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha761,007,213 - 61,241,913 (+)NCBI
ROS_Cfam_1.0761,622,639 - 61,857,284 (+)NCBI
ROS_Cfam_1.0 Ensembl761,622,650 - 61,857,419 (+)Ensembl
UMICH_Zoey_3.1761,295,928 - 61,530,281 (+)NCBI
UNSW_CanFamBas_1.0761,307,695 - 61,542,599 (+)NCBI
UU_Cfam_GSD_1.0761,611,517 - 61,845,901 (+)NCBI
Chst9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494457,604,245 - 57,811,242 (+)NCBI
SpeTri2.0NW_0049365506,004,528 - 6,030,407 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CHST9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6111,465,123 - 111,719,888 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16111,460,257 - 111,849,411 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26104,448,305 - 104,558,525 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CHST9
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11853,397,448 - 53,675,782 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1853,432,732 - 53,674,114 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605028,120,751 - 28,408,835 (+)NCBIVero_WHO_p1.0
Chst9
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247705,506,021 - 5,533,391 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046247705,275,677 - 5,535,613 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D18Rat62  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2186,791,251 - 6,791,521 (+)MAPPERmRatBN7.2
Rnor_6.0187,057,769 - 7,058,038NCBIRnor6.0
Rnor_5.0187,012,157 - 7,012,426UniSTSRnor5.0
RGSC_v3.4186,934,493 - 6,934,762UniSTSRGSC3.4
RGSC_v3.4186,934,443 - 6,934,805RGDRGSC3.4
RGSC_v3.1186,934,493 - 6,934,762RGD
Celera186,813,616 - 6,813,887UniSTS
RH 3.4 Map1873.4RGD
RH 3.4 Map1873.4UniSTS
RH 2.0 Map18796.0RGD
SHRSP x BN Map182.52RGD
FHH x ACI Map184.99RGD
Cytogenetic Map18p13UniSTS
D18Rat153  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2186,770,125 - 6,770,253 (+)MAPPERmRatBN7.2
Rnor_6.0187,026,373 - 7,026,500NCBIRnor6.0
Rnor_5.0186,982,508 - 6,982,635UniSTSRnor5.0
RGSC_v3.4186,906,329 - 6,906,457RGDRGSC3.4
RGSC_v3.4186,906,330 - 6,906,457UniSTSRGSC3.4
RGSC_v3.1186,906,329 - 6,906,457RGD
Celera186,790,131 - 6,790,258UniSTS
SHRSP x BN Map182.44RGD
SHRSP x BN Map182.44UniSTS
Cytogenetic Map18p13UniSTS
D18Got7  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0186,846,985 - 6,847,139NCBIRnor6.0
Rnor_5.0186,803,625 - 6,803,779UniSTSRnor5.0
RGSC_v3.4186,712,370 - 6,712,525RGDRGSC3.4
RGSC_v3.4186,712,371 - 6,712,525UniSTSRGSC3.4
RGSC_v3.1186,712,371 - 6,712,525RGD
Celera186,610,600 - 6,610,733UniSTS
RH 3.4 Map1868.5UniSTS
RH 3.4 Map1868.5RGD
RH 2.0 Map18790.2RGD
Cytogenetic Map18p13UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
8552968Pigfal19Plasma insulin-like growth factor 1 level QTL 1911.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)18125758124Rat
9590248Scort10Serum corticosterone level QTL 1019.710.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)18125758124Rat
2312598Bp340Blood pressure QTL 3400.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)18130558703Rat
2300180Bmd67Bone mineral density QTL 674.80.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)18134291613Rat
2293661Bss50Bone structure and strength QTL 504.640.0003lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)18134291613Rat
61388Bp2Blood pressure QTL 23.23arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)18135374722Rat
9589153Insul31Insulin level QTL 317.150.05blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)18142547119Rat
1641910Colcr3Colorectal carcinoma resistance QTL 35.020.000007intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor surface area measurement (CMO:0002078)18224947722066430Rat
1641910Colcr3Colorectal carcinoma resistance QTL 35.020.000007intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)18224947722066430Rat
2299160Iddm35Insulin dependent diabetes mellitus QTL 352.79blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)18420794160377792Rat
2312568Glom21Glomerulus QTL 2120.005kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)18518585840503530Rat
11565454Kidm59Kidney mass QTL 590.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)18679125112205285Rat
12904714Cm131Cardiac mass QTL 1310.002heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)18679125112205285Rat
12904715Cm132Cardiac mass QTL 1320.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)18679125112205285Rat
12904716Am21Aortic mass QTL 210.005aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)18679125112205285Rat
2301409Cm70Cardiac mass QTL 700.001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)18679125112205285Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:66
Count of miRNA genes:53
Interacting mature miRNAs:65
Transcripts:ENSRNOT00000021253
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


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 21
Low 3 6 51 41 2 41 50 14 33 11
Below cutoff 20 3 5 4 4 24 8 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000021253   ⟹   ENSRNOP00000021253
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl186,577,348 - 6,816,309 (-)Ensembl
Rnor_6.0 Ensembl186,834,365 - 7,081,356 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000098563   ⟹   ENSRNOP00000082918
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl186,577,348 - 6,850,868 (-)Ensembl
RefSeq Acc Id: NM_001170470   ⟹   NP_001163941
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2186,577,348 - 6,816,309 (-)NCBI
Rnor_6.0186,834,365 - 7,081,356 (-)NCBI
Rnor_5.0186,790,093 - 7,070,242 (-)NCBI
RGSC_v3.4186,698,623 - 6,959,482 (-)RGD
Celera186,597,391 - 6,839,012 (-)RGD
Sequence:
RefSeq Acc Id: XM_008771936   ⟹   XP_008770158
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2186,576,391 - 6,851,078 (-)NCBI
Rnor_6.0186,833,408 - 7,115,815 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600922   ⟹   XP_017456411
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2186,576,391 - 6,851,078 (-)NCBI
Rnor_6.0186,833,408 - 7,115,815 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001163941 (Get FASTA)   NCBI Sequence Viewer  
  XP_008770158 (Get FASTA)   NCBI Sequence Viewer  
  XP_017456411 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL75048 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001163941   ⟸   NM_001170470
- UniProtKB: F1M862 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008770158   ⟸   XM_008771936
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017456411   ⟸   XM_017600922
- Peptide Label: isoform X1
- UniProtKB: F1M862 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000021253   ⟸   ENSRNOT00000021253
RefSeq Acc Id: ENSRNOP00000082918   ⟸   ENSRNOT00000098563

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1M862-F1-model_v2 AlphaFold F1M862 1-414 view protein structure

Transcriptome

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


Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
18 6835370 6835371 T C snv ACI/N (MCW), ACI/N (2020), WN/N (2020), CDR, CDS, ACI/EurMcwi (MCW), COP/CrCrl (MCW & UW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), GH/OmrMcwi (MCW), SR/JrHsd (MCW), F344/NRrrc (MCW), M520/N (MCW), WKY/N (MCW), WN/N (MCW), ACI/EurMcwi (RGD), F344/NCrl (RGD), FHH/EurMcwi (RGD), FHL/EurMcwi (RGD), GK/Ox (RGD), LEW/Crl (RGD), LEW/NCrlBR (RGD), LH/MavRrrc (RGD), LN/MavRrrc (RGD), LL/MavRrrc (RGD), MHS/Gib (RGD), SHR/NHsd (RGD), SHRSP/Gcrc (RGD), SR/JrHsd (RGD), WKY/NCrl (RGD), WKY/Gcrc (RGD), WKY/NHsd (RGD), ACI/EurMcwi (2019), BXH2/CubMcwi (2020), BXH3/CubMcwi (2020), DA/OlaHsd (2019), F344/DuCrl (2019), F344/NCrl (2019), F344/N (2020), F344/Stm (2019), FHH/EurMcwi (2019), FXLE16/Stm (2020), FXLE18/Stm (2020), GK/FarMcwi (2019), HXB10/IpcvMcwi (2019), HXB20/IpcvMcwi (2020), HXB2/IpcvMcwi (2019), HXB31/IpcvMcwi (2019), HXB4/IpcvMcwi (2020), LEW/Crl (2019), LEXF11/Stm (2020), LEXF1A/Stm (2019), LEXF1C/Stm (2019), LEXF4/Stm (2020), LH/MavRrrcAek (2020), LL/MavRrrcAek (2020), LN/MavRrrcAek (2020), LEXF10A/StmMcwi (2020), M520/NRrrcMcwi (2019), M520/N (2020), PVG/Seac (2019), SHRSP/A3NCrl (2019), SHR/OlalpcvMcwi (2019), SR/JrHsd (2020), WKY/NCrl (2019), WKY/N (2020)


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
18 6792055 6792056 T C snv ACI/EurMcwi (MCW), KFRS3B/Kyo (KyushuU), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), GH/OmrMcwi (MCW), SR/JrHsd (MCW), WN/N (KNAW), LH/MavRrrc (KNAW), LL/MavRrrc (KNAW), LN/MavRrrc (KNAW), MHS/Gib (KNAW), SR/JrHsd (KNAW), ACI/N (KNAW), ACI/EurMcwi (KNAW), DA/BklArbNsi (KNAW), F344/NRrrc (SOLiD) (KNAW), F344/NCrl (KNAW), F344/NHsd (KNAW), FHH/EurMcwi (KNAW), FHL/EurMcwi (KNAW), GK/Ox (KNAW), LEW/Crl (KNAW), LEW/NCrl (KNAW), M520/N (KNAW), SHR/NCrlPrin (KNAW), SHR/NHsd (KNAW), SHR/OlaIpcv (KNAW), SHR/OlaIpcvPrin (KNAW), SHRSP/Gcrc (KNAW), F344/NRrrc (Illumina) (KNAW), WKY/Gcrc (KNAW), WKY/N (KNAW), WKY/NCrl (KNAW), WKY/NHsd (KNAW), SDLEF7/Barth (UDEL), Crl:SD (UDEL), IS/Kyo (KyushuU), BUF/MNa (KyushuU), NIG-III/Hok (KyushuU), F344/DuCrlCrlj (KyushuU), HTX/Kyo (KyushuU), F344/NSlc (KyushuU), IS-Tlk/Kyo (KyushuU), F344/Stm (KyushuU), LEC/Tj (KyushuU), F344/Jcl (KyushuU), BDIX/NemOda (KyushuU), DOB/Oda (KyushuU), BDIX.Cg-Tal/NemOda (KyushuU), COP/CrCrl (MCW & UW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
18 6699628 6699629 T C snv ACI/EurMcwi (MCW), F344/NHsd (ICAHN), FHL/EurMcwi (MCW), SR/JrHsd (MCW), SHR/OlaIpcv (ICL), FHH/EurMcwi (MDC), SHRSP/Gcrc (MDC), ACI/N (KNAW), F344/NRrrc (KNAW), M520/N (KNAW), WKY/N (KNAW), WN/N (KNAW), SHR/OlaIpcv (KNAW), COP/CrCrl (MCW & UW), GH/OmrMcwi (MCW), ACI/EurMcwi (ICL), F344/NCrl (ICL), FHH/EurMcwi (ICL), FHL/EurMcwi (ICL), GK/Ox (ICL), LEW/Crl (ICL), LEW/NCrl (ICL), LH/MavRrrc (ICL), LL/MavRrrc (ICL), LN/MavRrrc (ICL), MHS/Gib (ICL), SHR/OlaIpcv (ICL), SHR/NHsd (ICL), SHRSP/Gcrc (ICL), SR/JrHsd (ICL), WKY/NCrl (ICL), WKY/Gcrc (ICL), WKY/NHsd (ICL), HCR/1Mco (UMich), LCR/1Mco (UMich), HCR/2Mco (UMich), LCR/2Mco (UMich), DA/BklArbNsi (ICAHN), FHH/EurMcwi (MCW)


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
18 6578353 6578354 T C snv ACI/EurMcwi (2019), WN/N (2020), BXH2/CubMcwi (2020), BXH3/CubMcwi (2020), DA/OlaHsd (2019), F344/DuCrl (2019), F344/NCrl (2019), F344/N (2020), F344/Stm (2019), FHH/EurMcwi (2019), FXLE16/Stm (2020), FXLE18/Stm (2020), GK/FarMcwi (2019), HXB10/IpcvMcwi (2019), HXB20/IpcvMcwi (2020), HXB2/IpcvMcwi (2019), HXB31/IpcvMcwi (2019), HXB4/IpcvMcwi (2020), LEW/Crl (2019), LEXF11/Stm (2020), LEXF1A/Stm (2019), LEXF1C/Stm (2019), LEXF4/Stm (2020), LH/MavRrrcAek (2020), LL/MavRrrcAek (2020), LN/MavRrrcAek (2020), LEXF10A/StmMcwi (2020), M520/NRrrcMcwi (2019), M520/N (2020), PVG/Seac (2019), SHRSP/A3NCrl (2019), SHR/OlalpcvMcwi (2019), SR/JrHsd (2020), WKY/NCrl (2019), WKY/N (2020), ACI/N (2020)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307302 AgrOrtholog
BioCyc Gene G2FUF-8279 BioCyc
Ensembl Genes ENSRNOG00000015867 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000021253 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000082918 ENTREZGENE
Ensembl Transcript ENSRNOT00000021253 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000098563 ENTREZGENE
InterPro Carb_sulfotransferase-rel UniProtKB/TrEMBL
  Sulfotransferase UniProtKB/TrEMBL
KEGG Report rno:291770 UniProtKB/TrEMBL
NCBI Gene 291770 ENTREZGENE
PANTHER Carb_sulphotransferase UniProtKB/TrEMBL
Pfam Sulfotransfer_2 UniProtKB/TrEMBL
PhenoGen Chst9 PhenoGen
UniProt F1M862 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-29 Chst9  carbohydrate sulfotransferase 9  Chst9  carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 9  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Chst9  carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 9   Chst9_predicted  carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 9 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Chst9_predicted  carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 9 (predicted)      Symbol and Name status set to approved 70820 APPROVED