Sult1c2a (sulfotransferase family, cytosolic, 1C, member 2a) - Rat Genome Database
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Gene: Sult1c2a (sulfotransferase family, cytosolic, 1C, member 2a) Rattus norvegicus
Analyze
Symbol: Sult1c2a
Name: sulfotransferase family, cytosolic, 1C, member 2a
RGD ID: 1305885
Description: Predicted to have sulfotransferase activity. Predicted to be involved in sulfation. Predicted to localize to lysosome. Orthologous to human SULT1C2 (sulfotransferase family 1C member 2); INTERACTS WITH (+)-schisandrin B; 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC316153; LOC501086; MGC108549; RGD1565421; rSULT1C2A; similar to Sulfotransferase K2 (rSULT1C2A); ST1C2A; sulfotransferase 1C2A; sulfotransferase family, cytosolic, 1C, member 1; sulfotransferase K2; Sult1c1
RGD Orthologs
Human
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.296,873,697 - 6,904,736 (-)NCBI
Rnor_6.0 Ensembl94,152,589 - 4,168,221 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.094,152,588 - 4,168,355 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.093,191,456 - 3,207,086 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.491,030,264 - 1,168,243 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.191,030,264 - 1,168,243 (-)NCBI
Cytogenetic Map9q11NCBI
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
(+)-schisandrin B  (EXP)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-Amino-3-methyl-9H-pyrido[2,3-b]indole  (ISO)
2-naphthylamine  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4-nitrophenol  (EXP)
5-azacytidine  (ISO)
acetamide  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
arsenous acid  (ISO)
atrazine  (EXP)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
beta-naphthoflavone  (EXP)
bisphenol A  (EXP)
butanal  (ISO)
cadmium dichloride  (EXP)
calcitriol  (ISO)
catechol  (ISO)
cefaloridine  (EXP)
chenodeoxycholic acid  (ISO)
cis-caffeic acid  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
dexamethasone  (EXP)
diarsenic trioxide  (ISO)
dorsomorphin  (ISO)
enilconazole  (ISO)
entinostat  (ISO)
ethanol  (EXP)
fenofibrate  (EXP)
fipronil  (ISO)
flutamide  (EXP)
furan  (EXP)
genistein  (EXP)
glafenine  (EXP)
glutathione  (EXP)
kojic acid  (EXP)
methotrexate  (ISO)
N,N-diethyl-m-toluamide  (ISO)
N-hydroxy-4-aminobiphenyl  (ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosomorpholine  (EXP)
nefazodone  (EXP)
nimesulide  (EXP)
ochratoxin A  (EXP)
panobinostat  (ISO)
paracetamol  (ISO)
PCB138  (EXP)
pentanal  (ISO)
perfluorononanoic acid  (ISO)
phenylmercury acetate  (ISO)
pravastatin  (EXP)
pregnenolone 16alpha-carbonitrile  (EXP)
Propiverine  (EXP)
pyrazinecarboxamide  (EXP)
quercetin  (ISO)
Rebamipide  (EXP)
resveratrol  (EXP,ISO)
rotenone  (EXP)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium dichromate  (EXP)
streptozocin  (EXP)
tetrachloromethane  (EXP)
thioacetamide  (EXP)
trans-caffeic acid  (ISO)
trichostatin A  (ISO)
triphenyl phosphate  (EXP)
tris(2-butoxyethyl) phosphate  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)
zaragozic acid A  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
sulfation  (IBA,ISO)

Cellular Component
cytoplasm  (IBA)
lysosome  (IEA)

Molecular Function

References

Additional References at PubMed
PMID:10872834   PMID:12477932   PMID:15489334   PMID:19548878   PMID:20056724   PMID:24028175  


Genomics

Comparative Map Data
Sult1c2a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.296,873,697 - 6,904,736 (-)NCBI
Rnor_6.0 Ensembl94,152,589 - 4,168,221 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.094,152,588 - 4,168,355 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.093,191,456 - 3,207,086 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.491,030,264 - 1,168,243 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.191,030,264 - 1,168,243 (-)NCBI
Cytogenetic Map9q11NCBI
SULT1C2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2108,288,639 - 108,309,915 (+)EnsemblGRCh38hg38GRCh38
GRCh382108,288,895 - 108,309,915 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372108,905,351 - 108,926,371 (+)NCBIGRCh37GRCh37hg19GRCh37
GRCh372108,905,095 - 108,926,371 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362108,271,527 - 108,292,803 (+)NCBINCBI36hg18NCBI36
Build 342108,363,612 - 108,384,888NCBI
Celera2103,213,362 - 103,234,637 (+)NCBI
Cytogenetic Map2q12.3NCBI
HuRef2102,504,173 - 102,525,477 (+)NCBIHuRef
CHM1_12108,909,367 - 108,930,641 (+)NCBICHM1_1
LOC100623541
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl347,807,832 - 47,824,187 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1347,807,830 - 47,824,199 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2349,978,744 - 49,993,703 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SULT1C2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11411,709,266 - 11,731,318 (+)NCBI
ChlSab1.1 Ensembl1411,711,120 - 11,732,613 (+)Ensembl

Position Markers
RH129022  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.094,154,442 - 4,154,624NCBIRnor6.0
Rnor_6.094,622,852 - 4,623,034NCBIRnor6.0
Rnor_5.093,661,917 - 3,662,099UniSTSRnor5.0
Rnor_5.093,193,309 - 3,193,491UniSTSRnor5.0
Cytogenetic Map9q11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054141Gmadr4Adrenal mass QTL 42.450.0074adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)9116520166Rat
70226Eae4Experimental allergic encephalomyelitis QTL 4nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)9129467098Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9140383872Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9140383872Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9140383872Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9145029794Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9105522293442944Rat
1578675Bss17Bone structure and strength QTL 173.8femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)9190783415555026Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9235572247355722Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9235572247355722Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9288097747375681Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9288097747880977Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:551
Count of miRNA genes:253
Interacting mature miRNAs:302
Transcripts:ENSRNOT00000061861, ENSRNOT00000061864
Prediction methods:Microtar, 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


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 2 14 14 14 21
Low 1 5 5 5 8 12 3
Below cutoff 4 13 2 16 2 6 6 17 6 19 8 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000061861   ⟹   ENSRNOP00000058577
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl94,152,589 - 4,168,221 (-)Ensembl
RefSeq Acc Id: NM_001013177   ⟹   NP_001013195
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.296,873,702 - 6,901,111 (-)NCBI
RefSeq Acc Id: XM_017596890   ⟹   XP_017452379
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.094,152,588 - 4,168,355 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039083469   ⟹   XP_038939397
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.296,873,697 - 6,901,206 (-)NCBI
RefSeq Acc Id: XM_039083470   ⟹   XP_038939398
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.296,873,697 - 6,901,145 (-)NCBI
RefSeq Acc Id: XM_039083471   ⟹   XP_038939399
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.296,873,697 - 6,901,197 (-)NCBI
RefSeq Acc Id: XM_039083472   ⟹   XP_038939400
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.296,873,697 - 6,901,197 (-)NCBI
RefSeq Acc Id: XM_039083473   ⟹   XP_038939401
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.296,873,697 - 6,904,736 (-)NCBI
Reference Sequences
RefSeq Acc Id: XP_017452379   ⟸   XM_017596890
- Sequence:
RefSeq Acc Id: ENSRNOP00000058577   ⟸   ENSRNOT00000061861
RefSeq Acc Id: XP_038939401   ⟸   XM_039083473
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038939397   ⟸   XM_039083469
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038939400   ⟸   XM_039083472
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038939399   ⟸   XM_039083471
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038939398   ⟸   XM_039083470
- Peptide Label: isoform X1
RefSeq Acc Id: NP_001013195   ⟸   NM_001013177
- UniProtKB: Q569D0 (UniProtKB/TrEMBL)
Protein Domains
Sulfotransfer_1

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305885 AgrOrtholog
Ensembl Genes ENSRNOG00000042111 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000058577 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000061861 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7110136 IMAGE-MGC_LOAD
  IMAGE:7372924 IMAGE-MGC_LOAD
InterPro P-loop_NTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sulfotransferase_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:316153 UniProtKB/TrEMBL
MGC_CLONE MGC:108549 IMAGE-MGC_LOAD
  MGC:93045 IMAGE-MGC_LOAD
NCBI Gene 316153 ENTREZGENE
Pfam Sulfotransfer_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Sult1c2a PhenoGen
Superfamily-SCOP SSF52540 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt D3ZK28_RAT UniProtKB/TrEMBL
  Q569D0 ENTREZGENE, UniProtKB/TrEMBL
  Q9WUW9 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q642G8 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-29 Sult1c2a  sulfotransferase family, cytosolic, 1C, member 2a  RGD1565421  similar to Sulfotransferase K2 (rSULT1C2A)  Data Merged 737654 PROVISIONAL
2008-04-30 RGD1565421  similar to Sulfotransferase K2 (rSULT1C2A)   RGD1565421_predicted  similar to Sulfotransferase K2 (rSULT1C2A) (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1565421_predicted  similar to Sulfotransferase K2 (rSULT1C2A) (predicted)  LOC501086  similar to Sulfotransferase K2 (rSULT1C2A)  Symbol and Name status set to approved 1299863 APPROVED
2006-03-07 Sult1c2a  sulfotransferase family, cytosolic, 1C, member 2a  Sult1c1_predicted  sulfotransferase family, cytosolic, 1C, member 1 (predicted)  Symbol and Name updated 1299863 APPROVED
2006-02-09 LOC501086  similar to Sulfotransferase K2 (rSULT1C2A)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-12 Sult1c1_predicted  sulfotransferase family, cytosolic, 1C, member 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED