Gal3st1 (galactose-3-O-sulfotransferase 1) - Rat Genome Database

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Gene: Gal3st1 (galactose-3-O-sulfotransferase 1) Rattus norvegicus
Analyze
Symbol: Gal3st1
Name: galactose-3-O-sulfotransferase 1
RGD ID: 1583379
Description: Predicted to have galactosylceramide sulfotransferase activity. Predicted to be involved in several processes, including galactosylceramide biosynthetic process; myelination; and spermatogenesis. Predicted to localize to integral component of membrane. Orthologous to human GAL3ST1 (galactose-3-O-sulfotransferase 1); PARTICIPATES IN Fabry disease pathway; Gaucher's disease pathway; Krabbe disease pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 6-propyl-2-thiouracil; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: galactosylceramide sulfotransferase; hypothetical protein LOC683713; LOC683713; similar to Galactosylceramide sulfotransferase (GalCer sulfotransferase) (Cerebroside sulfotransferase) (3-phosphoadenylylsulfate:galactosylceramide 3-sulfotransferase) (3-phosphoadenosine-5phosphosulfate:GalCer sulfotransferase); uncharacterized protein LOC683713
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21478,868,049 - 78,886,402 (+)NCBI
Rnor_6.0 Ensembl1484,231,639 - 84,247,369 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01484,231,473 - 84,247,371 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01484,915,288 - 84,929,677 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41484,636,490 - 84,642,269 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1477,782,762 - 77,798,192 (+)NCBICelera
Cytogenetic Map14q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:10727929   PMID:11917099   PMID:12477932  


Genomics

Comparative Map Data
Gal3st1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21478,868,049 - 78,886,402 (+)NCBI
Rnor_6.0 Ensembl1484,231,639 - 84,247,369 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01484,231,473 - 84,247,371 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01484,915,288 - 84,929,677 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41484,636,490 - 84,642,269 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1477,782,762 - 77,798,192 (+)NCBICelera
Cytogenetic Map14q21NCBI
GAL3ST1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2230,554,635 - 30,574,665 (-)EnsemblGRCh38hg38GRCh38
GRCh382230,554,635 - 30,574,665 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372230,950,622 - 30,970,652 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362229,280,624 - 29,290,876 (-)NCBINCBI36hg18NCBI36
Build 342229,275,177 - 29,285,430NCBI
Celera2214,750,340 - 14,760,591 (-)NCBI
Cytogenetic Map22q12.2NCBI
HuRef2213,912,757 - 13,922,983 (-)NCBIHuRef
CHM1_12230,910,036 - 30,929,981 (-)NCBICHM1_1
Gal3st1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39113,933,636 - 3,949,328 (+)NCBIGRCm39mm39
GRCm39 Ensembl113,933,636 - 3,949,326 (+)Ensembl
GRCm38113,983,636 - 3,999,328 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl113,983,636 - 3,999,326 (+)EnsemblGRCm38mm10GRCm38
MGSCv37113,883,639 - 3,899,331 (+)NCBIGRCm37mm9NCBIm37
MGSCv36113,883,716 - 3,899,318 (+)NCBImm8
Celera114,478,907 - 4,494,599 (+)NCBICelera
Cytogenetic Map11A1NCBI
Gal3st1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554554,771,346 - 4,784,142 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554554,771,378 - 4,794,085 (-)NCBIChiLan1.0ChiLan1.0
GAL3ST1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12229,382,779 - 29,403,310 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2229,382,779 - 29,393,042 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02211,582,915 - 11,602,936 (-)NCBIMhudiblu_PPA_v0panPan3
GAL3ST1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12623,634,884 - 23,654,205 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2623,637,844 - 23,646,219 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2623,508,876 - 23,510,937 (-)NCBI
ROS_Cfam_1.02624,021,806 - 24,038,366 (-)NCBI
UMICH_Zoey_3.12623,723,595 - 23,725,656 (-)NCBI
UNSW_CanFamBas_1.02623,986,212 - 23,988,273 (-)NCBI
UU_Cfam_GSD_1.02624,046,756 - 24,048,817 (-)NCBI
Gal3st1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118116,575,603 - 116,591,774 (-)NCBI
SpeTri2.0NW_004936904142,576 - 158,606 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GAL3ST1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1447,457,784 - 47,485,609 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11447,455,089 - 47,476,459 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21450,539,757 - 50,578,316 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GAL3ST1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11913,431,245 - 13,451,189 (-)NCBI
ChlSab1.1 Ensembl1913,431,270 - 13,434,055 (-)Ensembl
Vero_WHO_p1.0NW_023666045112,682,070 - 112,705,045 (+)NCBI
Gal3st1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046257051,409 - 4,810 (+)NCBI

Position Markers
RH144011  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21478,886,087 - 78,886,200 (+)MAPPER
Rnor_6.01484,247,057 - 84,247,169NCBIRnor6.0
Rnor_5.01484,929,363 - 84,929,475UniSTSRnor5.0
Celera1477,797,892 - 77,798,004UniSTS
RH 3.4 Map14542.5UniSTS
Gal3st1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21478,884,079 - 78,885,246 (+)MAPPER
Rnor_6.01484,245,049 - 84,246,215NCBIRnor6.0
Rnor_5.01484,927,355 - 84,928,521UniSTSRnor5.0
Celera1477,795,884 - 77,797,050UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1412680424106641756Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143259392686191589Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)144031561085315610Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)144031561085315610Rat
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)144031561085315610Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)144031561085315610Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1442442731108833671Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1443910761105074364Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1451818462105074364Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1460980905105980905Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1460980905105980905Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)146187332388870994Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1461993178106993178Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1463548095108548095Rat
70153Bp59Blood pressure QTL 593.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)147339146788870994Rat
1582236Gluco22Glucose level QTL 223.30.0164blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1478172765102549388Rat
1582255Gluco29Glucose level QTL 293.10.0025blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)1478172765102549388Rat
1582197Gluco27Glucose level QTL 273.40.0006blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1478172765102549388Rat
1582209Gluco20Glucose level QTL 203.80.0005blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1478172765102549388Rat
1582250Gluco26Glucose level QTL 263.30.0009blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1478172765106641756Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1478446303110402569Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1480049285115493446Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1480049285115493446Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:131
Count of miRNA genes:106
Interacting mature miRNAs:113
Transcripts:ENSRNOT00000066362
Prediction methods:Microtar, 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 1 10 8
Low 2 14 14 14 2 2 40 25 26 11 2
Below cutoff 34 32 22 9 22 4 5 10 2 15 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000066362   ⟹   ENSRNOP00000062589
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1484,231,639 - 84,247,357 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000083580   ⟹   ENSRNOP00000069478
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1484,237,520 - 84,247,369 (+)Ensembl
RefSeq Acc Id: NM_001109447   ⟹   NP_001102917
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21478,870,793 - 78,886,388 (+)NCBI
Rnor_6.01484,231,639 - 84,247,357 (+)NCBI
Rnor_5.01484,915,288 - 84,929,677 (+)NCBI
RGSC_v3.41484,636,490 - 84,642,269 (+)RGD
Celera1477,782,762 - 77,798,192 (+)RGD
Sequence:
RefSeq Acc Id: XM_006251382   ⟹   XP_006251444
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21478,868,049 - 78,886,402 (+)NCBI
Rnor_6.01484,231,473 - 84,247,371 (+)NCBI
Rnor_5.01484,915,288 - 84,929,677 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006251383   ⟹   XP_006251445
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21478,870,898 - 78,886,402 (+)NCBI
Rnor_6.01484,235,638 - 84,247,371 (+)NCBI
Rnor_5.01484,915,288 - 84,929,677 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008770366   ⟹   XP_008768588
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21478,870,898 - 78,886,402 (+)NCBI
Rnor_6.01484,231,742 - 84,247,371 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599380   ⟹   XP_017454869
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01484,239,737 - 84,247,371 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001102917   ⟸   NM_001109447
- UniProtKB: D3ZCT9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251444   ⟸   XM_006251382
- Peptide Label: isoform X1
- UniProtKB: Q5PQK7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251445   ⟸   XM_006251383
- Peptide Label: isoform X1
- UniProtKB: Q5PQK7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008768588   ⟸   XM_008770366
- Peptide Label: isoform X2
- UniProtKB: D3ZCT9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017454869   ⟸   XM_017599380
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000062589   ⟸   ENSRNOT00000066362
RefSeq Acc Id: ENSRNOP00000069478   ⟸   ENSRNOT00000083580

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)
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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
SBH/Ygl (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: SBH/Ygl sequenced by MCW
SBH/Ygl (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
SBN/Ygl (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: SBN/Ygl sequenced by MCW
SBN/Ygl (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
SHR/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
SHRSP/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
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
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:1583379 AgrOrtholog
Ensembl Genes ENSRNOG00000042041 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000062589 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000069478 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000066362 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000083580 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7129361 IMAGE-MGC_LOAD
InterPro Gal-3-0_sulfotransfrase UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
KEGG Report rno:683713 UniProtKB/TrEMBL
MGC_CLONE MGC:95146 IMAGE-MGC_LOAD
NCBI Gene 683713 ENTREZGENE
PANTHER PTHR14647 UniProtKB/TrEMBL
Pfam Gal-3-0_sulfotr UniProtKB/TrEMBL
PhenoGen Gal3st1 PhenoGen
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt D3ZCT9 ENTREZGENE, UniProtKB/TrEMBL
  Q5PQK7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-09-26 Gal3st1  galactose-3-O-sulfotransferase 1  LOC683713  similar to Galactosylceramide sulfotransferase (GalCer sulfotransferase) (Cerebroside sulfotransferase) (3-phosphoadenylylsulfate:galactosylceramide 3-sulfotransferase) (3-phosphoadenosine-5phosphosulfate:GalCer sulfotransferase)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC683713  similar to Galactosylceramide sulfotransferase (GalCer sulfotransferase) (Cerebroside sulfotransferase) (3-phosphoadenylylsulfate:galactosylceramide 3-sulfotransferase) (3-phosphoadenosine-5phosphosulfate:GalCer sulfotransferase)      Symbol and Name status set to provisional 70820 PROVISIONAL