Hs3st5 (heparan sulfate-glucosamine 3-sulfotransferase 5) - Rat Genome Database

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Gene: Hs3st5 (heparan sulfate-glucosamine 3-sulfotransferase 5) Rattus norvegicus
Analyze
Symbol: Hs3st5
Name: heparan sulfate-glucosamine 3-sulfotransferase 5
RGD ID: 1306379
Description: Predicted to have [heparan sulfate]-glucosamine 3-sulfotransferase 1 activity. Predicted to be involved in several processes, including heparan sulfate proteoglycan biosynthetic process, enzymatic modification; protein sulfation; and regulation of viral entry into host cell. Orthologous to human HS3ST5 (heparan sulfate-glucosamine 3-sulfotransferase 5); PARTICIPATES IN heparan sulfate biosynthetic pathway; INTERACTS WITH 1,2-dimethylhydrazine; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: heparan sulfate (glucosamine) 3-O-sulfotransferase 5; heparan sulfate glucosamine 3-O-sulfotransferase 5; LOC294449
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
mRatBN7.22040,106,876 - 40,417,661 (+)NCBI
Rnor_6.0 Ensembl2040,236,437 - 40,545,494 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02040,236,437 - 40,545,502 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02041,969,878 - 42,279,758 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42040,711,763 - 41,022,773 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12041,039,793 - 41,044,941 (+)NCBI
Celera2040,863,898 - 41,173,368 (+)NCBICelera
Cytogenetic Map20q12NCBI
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
References

Additional References at PubMed
PMID:12138164   PMID:12740361  


Genomics

Comparative Map Data
Hs3st5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22040,106,876 - 40,417,661 (+)NCBI
Rnor_6.0 Ensembl2040,236,437 - 40,545,494 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02040,236,437 - 40,545,502 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02041,969,878 - 42,279,758 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42040,711,763 - 41,022,773 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12041,039,793 - 41,044,941 (+)NCBI
Celera2040,863,898 - 41,173,368 (+)NCBICelera
Cytogenetic Map20q12NCBI
HS3ST5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl6114,055,586 - 114,343,045 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl6114,055,596 - 114,343,023 (-)EnsemblGRCh38hg38GRCh38
GRCh386114,055,586 - 114,343,023 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh376114,376,760 - 114,664,187 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 366114,485,114 - 114,490,702 (-)NCBINCBI36hg18NCBI36
Build 346114,485,113 - 114,490,702NCBI
Celera6115,118,158 - 115,125,449 (-)NCBI
Cytogenetic Map6q21-q22.1NCBI
HuRef6111,953,620 - 111,960,911 (-)NCBIHuRef
CHM1_16114,639,638 - 114,646,928 (-)NCBICHM1_1
Hs3st5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391036,382,794 - 36,710,393 (+)NCBIGRCm39mm39
GRCm39 Ensembl1036,382,810 - 36,710,393 (+)Ensembl
GRCm381036,506,590 - 36,834,397 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1036,506,814 - 36,834,397 (+)EnsemblGRCm38mm10GRCm38
MGSCv371036,226,613 - 36,554,203 (+)NCBIGRCm37mm9NCBIm37
MGSCv361036,196,223 - 36,523,813 (+)NCBImm8
Celera1037,409,543 - 37,736,930 (+)NCBICelera
Cytogenetic Map10B1NCBI
Hs3st5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555262,636,579 - 2,652,405 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555262,418,217 - 2,652,025 (+)NCBIChiLan1.0ChiLan1.0
HS3ST5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.16115,917,004 - 116,202,924 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6115,917,004 - 116,089,942 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v06111,846,143 - 112,132,706 (-)NCBIMhudiblu_PPA_v0panPan3
HS3ST5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11270,137,232 - 70,387,797 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1270,140,802 - 70,388,174 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1269,884,392 - 70,134,790 (-)NCBI
ROS_Cfam_1.01271,019,134 - 71,268,571 (-)NCBI
UMICH_Zoey_3.11270,370,842 - 70,620,669 (-)NCBI
UNSW_CanFamBas_1.01270,209,266 - 70,461,102 (-)NCBI
UU_Cfam_GSD_1.01270,540,322 - 70,791,458 (-)NCBI
Hs3st5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946105,308,246 - 105,505,241 (-)NCBI
SpeTri2.0NW_0049366792,540,894 - 2,737,462 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HS3ST5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl179,955,657 - 80,243,797 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1179,956,485 - 80,140,140 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2190,017,049 - 90,306,175 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HS3ST5
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11359,486,748 - 59,774,673 (+)NCBI
ChlSab1.1 Ensembl1359,598,298 - 59,774,953 (+)Ensembl
Vero_WHO_p1.0NW_02366604031,859,012 - 32,137,822 (+)NCBI
Hs3st5
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248564,403,071 - 4,689,535 (+)NCBI

Position Markers
D20Rat54  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22040,197,445 - 40,197,655 (+)MAPPER
Rnor_6.02040,326,992 - 40,327,201NCBIRnor6.0
Rnor_5.02042,060,631 - 42,060,840UniSTSRnor5.0
RGSC_v3.42040,802,969 - 40,803,178UniSTSRGSC3.4
RGSC_v3.42040,802,968 - 40,803,178RGDRGSC3.4
RGSC_v3.12040,825,980 - 40,826,189RGD
Celera2040,954,269 - 40,954,478UniSTS
RH 3.4 Map20442.74RGD
RH 3.4 Map20442.74UniSTS
RH 2.0 Map20531.7RGD
SHRSP x BN Map2028.7099RGD
Cytogenetic Map20q12UniSTS
RH137357  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22040,417,166 - 40,417,379 (+)MAPPER
Rnor_6.02040,545,008 - 40,545,220NCBIRnor6.0
Rnor_5.02042,279,264 - 42,279,476UniSTSRnor5.0
RGSC_v3.42041,022,287 - 41,022,499UniSTSRGSC3.4
Celera2041,172,882 - 41,173,094UniSTS
RH 3.4 Map20445.31UniSTS
Cytogenetic Map20q12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20201865447018654Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20299970747999707Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)20410895649108956Rat
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201383430956205956Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201383430956205956Rat
2317880Alcrsp25Alcohol response QTL 252.3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)201782709656205956Rat
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)201887215049108956Rat
2303626Vencon10Ventilatory control QTL 100.001respiration trait (VT:0001943)respiration rate (CMO:0000289)202085847056205956Rat
2303578Gluco50Glucose level QTL 502blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)202660884356205956Rat
2303587Bw93Body weight QTL 9313body mass (VT:0001259)body weight (CMO:0000012)202660884356205956Rat
2300188Bmd68Bone mineral density QTL 686.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)202660884356205956Rat
1331747Hrtrt16Heart rate QTL 163.163heart pumping trait (VT:2000009)heart rate (CMO:0000002)202671232356205956Rat
1598869Memor6Memory QTL 63.1exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)203091348156205956Rat
70158Bp60Blood pressure QTL 603arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)203335478345719230Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:118
Count of miRNA genes:86
Interacting mature miRNAs:111
Transcripts:ENSRNOT00000000743
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 25
Low 19 3 8 10 43 2 22 5 8
Below cutoff 3 20 23 15 4 15 1 6 16 15 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000000743   ⟹   ENSRNOP00000000743
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2040,236,437 - 40,545,494 (+)Ensembl
RefSeq Acc Id: NM_001106392   ⟹   NP_001099862
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22040,106,876 - 40,417,653 (+)NCBI
Rnor_6.02040,236,437 - 40,545,494 (+)NCBI
Rnor_5.02041,969,878 - 42,279,758 (+)NCBI
RGSC_v3.42040,711,763 - 41,022,773 (+)RGD
Celera2040,863,898 - 41,173,368 (+)RGD
Sequence:
RefSeq Acc Id: XM_017601623   ⟹   XP_017457112
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22040,106,896 - 40,417,661 (+)NCBI
Rnor_6.02040,236,447 - 40,545,502 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601624   ⟹   XP_017457113
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02040,241,140 - 40,545,502 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601625   ⟹   XP_017457114
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22040,106,896 - 40,417,661 (+)NCBI
Rnor_6.02040,236,447 - 40,545,502 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601626   ⟹   XP_017457115
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22040,106,896 - 40,417,661 (+)NCBI
Rnor_6.02040,236,447 - 40,545,502 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001099862 (Get FASTA)   NCBI Sequence Viewer  
  XP_017457112 (Get FASTA)   NCBI Sequence Viewer  
  XP_017457114 (Get FASTA)   NCBI Sequence Viewer  
  XP_017457115 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL87790 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001099862   ⟸   NM_001106392
- UniProtKB: D3ZDL1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457112   ⟸   XM_017601623
- Peptide Label: isoform X1
- UniProtKB: D3ZDL1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457114   ⟸   XM_017601625
- Peptide Label: isoform X1
- UniProtKB: D3ZDL1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457115   ⟸   XM_017601626
- Peptide Label: isoform X1
- UniProtKB: D3ZDL1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457113   ⟸   XM_017601624
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000000743   ⟸   ENSRNOT00000000743
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)
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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
Damaging Variants


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 41021090 41021091 A T snv FHL/EurMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306379 AgrOrtholog
Ensembl Genes ENSRNOG00000000605 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000000743 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000000743 ENTREZGENE, UniProtKB/TrEMBL
InterPro NST/OST UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  Sulfotransferase_dom UniProtKB/TrEMBL
KEGG Report rno:294449 UniProtKB/TrEMBL
NCBI Gene 294449 ENTREZGENE
PANTHER PTHR10605 UniProtKB/TrEMBL
Pfam Sulfotransfer_1 UniProtKB/TrEMBL
PhenoGen Hs3st5 PhenoGen
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt D3ZDL1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-09 Hs3st5  heparan sulfate-glucosamine 3-sulfotransferase 5  Hs3st5  heparan sulfate (glucosamine) 3-O-sulfotransferase 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Hs3st5  heparan sulfate (glucosamine) 3-O-sulfotransferase 5   Hs3st5_predicted  heparan sulfate (glucosamine) 3-O-sulfotransferase 5 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Hs3st5_predicted  heparan sulfate (glucosamine) 3-O-sulfotransferase 5 (predicted)      Symbol and Name status set to approved 70820 APPROVED