Hs6st3 (heparan sulfate 6-O-sulfotransferase 3) - Rat Genome Database

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Gene: Hs6st3 (heparan sulfate 6-O-sulfotransferase 3) Rattus norvegicus
Analyze
Symbol: Hs6st3
Name: heparan sulfate 6-O-sulfotransferase 3
RGD ID: 1305888
Description: Predicted to enable heparan sulfate 6-O-sulfotransferase activity. Predicted to be involved in heparan sulfate proteoglycan biosynthetic process. Predicted to act upstream of or within heparan sulfate proteoglycan biosynthetic process, enzymatic modification. Predicted to be located in membrane. Predicted to be active in Golgi apparatus. Orthologous to human HS6ST3 (heparan sulfate 6-O-sulfotransferase 3); PARTICIPATES IN heparan sulfate biosynthetic pathway; INTERACTS WITH 17alpha-ethynylestradiol; 6-propyl-2-thiouracil; acrylamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: heparan-sulfate 6-O-sulfotransferase 3; LOC306170; LOC364476; RGD1560050; similar to heparan sulfate 6-sulfotransferase 3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr815102,688,420 - 103,407,725 (+)NCBIGRCr8
mRatBN7.21596,281,502 - 97,000,804 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1596,281,646 - 97,000,462 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx15100,187,141 - 100,922,721 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.015101,319,502 - 102,029,799 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01598,248,330 - 98,971,892 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.015104,448,479 - 105,254,540 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl15104,448,600 - 105,254,214 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.015107,871,035 - 107,871,884 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.015108,635,603 - 108,663,069 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.415104,157,904 - 104,914,126NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1595,121,926 - 95,826,748 (+)NCBICelera
Cytogenetic Map15q24NCBI
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

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
2. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10644753   PMID:21873635   PMID:25761692  


Genomics

Comparative Map Data
Hs6st3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr815102,688,420 - 103,407,725 (+)NCBIGRCr8
mRatBN7.21596,281,502 - 97,000,804 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1596,281,646 - 97,000,462 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx15100,187,141 - 100,922,721 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.015101,319,502 - 102,029,799 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01598,248,330 - 98,971,892 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.015104,448,479 - 105,254,540 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl15104,448,600 - 105,254,214 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.015107,871,035 - 107,871,884 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.015108,635,603 - 108,663,069 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.415104,157,904 - 104,914,126NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1595,121,926 - 95,826,748 (+)NCBICelera
Cytogenetic Map15q24NCBI
HS6ST3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381396,090,107 - 96,839,562 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1396,090,107 - 96,839,562 (+)EnsemblGRCh38hg38GRCh38
GRCh371396,742,361 - 97,491,816 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361395,541,094 - 96,289,813 (+)NCBINCBI36Build 36hg18NCBI36
Build 341395,541,093 - 96,289,812NCBI
Celera1377,590,616 - 78,339,250 (+)NCBICelera
Cytogenetic Map13q32.1NCBI
HuRef1377,340,282 - 78,088,949 (+)NCBIHuRef
CHM1_11396,713,494 - 97,462,214 (+)NCBICHM1_1
T2T-CHM13v2.01395,294,349 - 96,043,658 (+)NCBIT2T-CHM13v2.0
Hs6st3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3914119,374,902 - 120,226,864 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl14119,375,753 - 120,107,227 (+)EnsemblGRCm39 Ensembl
GRCm3814119,137,516 - 119,869,815 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl14119,138,341 - 119,869,815 (+)EnsemblGRCm38mm10GRCm38
MGSCv3714119,537,487 - 120,269,037 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3614118,273,483 - 119,004,997 (+)NCBIMGSCv36mm8
Celera14117,692,032 - 118,432,138 (+)NCBICelera
Cytogenetic Map14E4NCBI
cM Map1462.67NCBI
Hs6st3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540413,468,128 - 14,128,707 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540413,461,906 - 14,129,089 (-)NCBIChiLan1.0ChiLan1.0
HS6ST3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21497,612,103 - 98,354,539 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11396,671,258 - 97,023,269 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01377,256,399 - 77,998,022 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11396,414,415 - 97,150,741 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1396,414,409 - 97,148,398 (+)Ensemblpanpan1.1panPan2
HS6ST3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12247,257,641 - 47,265,143 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2247,117,757 - 47,259,351 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2246,415,114 - 47,045,651 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02247,059,742 - 47,690,994 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.12246,722,627 - 47,354,975 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02246,755,655 - 47,387,212 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02246,792,123 - 47,424,056 (+)NCBIUU_Cfam_GSD_1.0
Hs6st3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945182,140,408 - 182,794,486 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647213,163,842 - 13,811,708 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647213,157,669 - 13,811,747 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HS6ST3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1165,516,097 - 66,187,242 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11165,516,180 - 66,193,410 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21173,192,012 - 73,199,496 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HS6ST3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1374,840,589 - 75,576,397 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604631,277,947 - 32,026,474 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hs6st3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248792,678,482 - 3,402,590 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248792,678,403 - 3,408,630 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Hs6st3
4356 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:213
Count of miRNA genes:155
Interacting mature miRNAs:169
Transcripts:ENSRNOT00000057567, ENSRNOT00000071685
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731177Uae26Urinary albumin excretion QTL 262.40.025urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1567588667101769107Rat
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)154063126898288169Rat
1576315Schws6Schwannoma susceptibility QTL 60.0069nervous system integrity trait (VT:0010566)post-insult time of death (CMO:0002005)155380615298806152Rat
1549844Bss7Bone structure and strength QTL 76.4femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1575788062101769107Rat
2300326Plaw1Placental weight QTL 1150.005placenta mass (VT:0004257)placenta wet weight (CMO:0002088)1568327165100062518Rat
1300118Bp190Blood pressure QTL 1902.94arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)158226252098288169Rat
70155Gcs1Gastric cancer susceptibility QTL13.8stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)1576306099101769107Rat
1300120Kidm7Kidney mass QTL 73.55kidney mass (VT:0002707)left kidney wet weight to body weight ratio (CMO:0001954)158226252098288169Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
631655Bp126Blood pressure QTL 1264arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1558156477101769107Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
1641889Colcr6Colorectal carcinoma resistance QTL 62.90.0126intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)157369051899794247Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
2317055Aia10Adjuvant induced arthritis QTL 103.41joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1575788062101769107Rat

Markers in Region
D15Got92  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21596,613,931 - 96,614,225 (+)MAPPERmRatBN7.2
Rnor_6.015104,867,143 - 104,867,434NCBIRnor6.0
Rnor_5.015108,273,038 - 108,273,329UniSTSRnor5.0
RGSC_v3.415104,507,981 - 104,508,273RGDRGSC3.4
RGSC_v3.415104,507,982 - 104,508,273UniSTSRGSC3.4
RGSC_v3.115104,523,762 - 104,524,053RGD
Celera1595,452,591 - 95,452,882UniSTS
RH 3.4 Map15688.3UniSTS
RH 3.4 Map15688.3RGD
RH 2.0 Map15587.0RGD
Cytogenetic Map15q24UniSTS
D15Got241  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21596,889,244 - 96,889,335 (+)MAPPERmRatBN7.2
Rnor_6.015105,144,515 - 105,144,605NCBIRnor6.0
Rnor_5.015108,552,507 - 108,552,597UniSTSRnor5.0
RGSC_v3.415104,796,172 - 104,796,262UniSTSRGSC3.4
Celera1595,715,996 - 95,716,086UniSTS
Cytogenetic Map15q24UniSTS
BE101758  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21596,524,750 - 96,524,953 (+)MAPPERmRatBN7.2
Rnor_6.015104,761,073 - 104,761,275NCBIRnor6.0
Rnor_5.015108,171,470 - 108,171,672UniSTSRnor5.0
RGSC_v3.415104,418,791 - 104,418,993UniSTSRGSC3.4
Celera1595,363,626 - 95,363,828UniSTS
RH 3.4 Map15648.0UniSTS
Cytogenetic Map15q24UniSTS
BE119291  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21597,000,581 - 97,000,734 (+)MAPPERmRatBN7.2
Rnor_6.015105,254,318 - 105,254,470NCBIRnor6.0
Rnor_5.015108,662,847 - 108,662,999UniSTSRnor5.0
RGSC_v3.415104,914,246 - 104,914,398UniSTSRGSC3.4
Celera1595,826,526 - 95,826,678UniSTS
RH 3.4 Map15688.4UniSTS
Cytogenetic Map15q24UniSTS
G45161  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21596,818,519 - 96,818,689 (+)MAPPERmRatBN7.2
Rnor_6.015104,548,511 - 104,548,678NCBIRnor6.0
Rnor_6.015105,064,210 - 105,064,377NCBIRnor6.0
Rnor_5.015107,960,268 - 107,960,435UniSTSRnor5.0
Rnor_5.015108,472,202 - 108,472,369UniSTSRnor5.0
RGSC_v3.415104,725,362 - 104,725,529UniSTSRGSC3.4
Celera1595,645,215 - 95,645,392UniSTS
Cytogenetic Map15q24UniSTS
Hs6st3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21597,000,254 - 97,000,444 (+)MAPPERmRatBN7.2
Rnor_6.015105,253,991 - 105,254,180NCBIRnor6.0
Rnor_5.015108,662,520 - 108,662,709UniSTSRnor5.0
Celera1595,826,199 - 95,826,388UniSTS
Cytogenetic Map15q24UniSTS


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 39
Low 6 4 2 29 2 17
Below cutoff 1 15 18 9 12 9 4 5 6 25 21 5 4

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001271404 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000015 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSRNOT00000057567
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl15104,448,623 - 104,449,469 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000071685
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl15105,253,485 - 105,254,198 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000093519
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1596,281,646 - 97,000,462 (+)Ensembl
Rnor_6.0 Ensembl15104,448,600 - 105,254,214 (+)Ensembl
RefSeq Acc Id: NM_001271404   ⟹   NP_001258333
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr815102,688,420 - 103,407,725 (+)NCBI
mRatBN7.21596,281,502 - 97,000,804 (+)NCBI
Rnor_6.015104,448,479 - 105,254,540 (+)NCBI
Rnor_5.015108,635,603 - 108,663,069 (+)NCBI
Rnor_5.015107,871,035 - 107,871,884 (+)NCBI
Celera1595,121,926 - 95,826,748 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001258333 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000079301.1
RefSeq Acc Id: NP_001258333   ⟸   NM_001271404
- Peptide Label: precursor
- UniProtKB: A0A8I5ZN51 (UniProtKB/TrEMBL)
- Sequence:

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305888 AgrOrtholog
BioCyc Gene G2FUF-12425 BioCyc
BioCyc Pathway PWY-6558 [heparan sulfate biosynthesis] BioCyc
BioCyc Pathway Image PWY-6558 BioCyc
Ensembl Genes ENSRNOG00000037886 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000093519.2 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/TrEMBL
InterPro Heparan_SO4-6-sulfoTrfase UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  Sulfotransferase UniProtKB/TrEMBL
KEGG Report rno:364476 UniProtKB/TrEMBL
NCBI Gene 364476 ENTREZGENE
PANTHER HEPARAN-SULFATE 6-O-SULFOTRANSFERASE 3 UniProtKB/TrEMBL
  PTHR12812 UniProtKB/TrEMBL
Pfam Sulfotransfer_2 UniProtKB/TrEMBL
PhenoGen Hs6st3 PhenoGen
RatGTEx ENSRNOG00000037886 RatGTEx
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt A0A8I5ZN51 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-05-24 Hs6st3  heparan sulfate 6-O-sulfotransferase 3  RGD1560050  similar to heparan sulfate 6-sulfotransferase 3  Data merged from RGD:1560050 1643240 APPROVED
2008-04-30 Hs6st3  heparan sulfate 6-O-sulfotransferase 3   Hs6st3_predicted  heparan sulfate 6-O-sulfotransferase 3 (predicted)  'predicted' is removed 2292626 APPROVED
2008-04-30 RGD1560050  similar to heparan sulfate 6-sulfotransferase 3   RGD1560050_predicted  similar to heparan sulfate 6-sulfotransferase 3 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1560050_predicted  similar to heparan sulfate 6-sulfotransferase 3 (predicted)  LOC306170  similar to heparan sulfate 6-sulfotransferase 3  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC306170  similar to heparan sulfate 6-sulfotransferase 3      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-12 Hs6st3_predicted  heparan sulfate 6-O-sulfotransferase 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED