Hs6st2 (heparan sulfate 6-O-sulfotransferase 2) - Rat Genome Database

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Gene: Hs6st2 (heparan sulfate 6-O-sulfotransferase 2) Rattus norvegicus
Analyze
Symbol: Hs6st2
Name: heparan sulfate 6-O-sulfotransferase 2
RGD ID: 1564397
Description: Predicted to enable heparan sulfate 6-O-sulfotransferase activity. Predicted to be involved in heparan sulfate proteoglycan biosynthetic process, enzymatic modification. Predicted to be located in membrane. Predicted to be active in Golgi apparatus. Human ortholog(s) of this gene implicated in Paganini-Miozzo syndrome. Orthologous to human HS6ST2 (heparan sulfate 6-O-sulfotransferase 2); PARTICIPATES IN heparan sulfate biosynthetic pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: heparan-sulfate 6-O-sulfotransferase 2; LOC302489; RGD1563872; RGD1564397; similar to heparan sulfate 6-O-sulfotransferase 2 isoform S
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X130,966,547 - 131,261,629 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX130,968,385 - 131,261,492 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX133,124,918 - 133,418,748 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X136,706,854 - 137,000,684 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X134,281,915 - 134,575,023 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X138,675,326 - 138,972,774 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX138,677,580 - 138,972,684 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X138,733,912 - 139,028,075 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X138,268,438 - 138,566,049 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX129,889,782 - 130,179,847 (-)NCBICelera
Cytogenetic MapXq36NCBI
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. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10644753   PMID:23376485  


Genomics

Comparative Map Data
Hs6st2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X130,966,547 - 131,261,629 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX130,968,385 - 131,261,492 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX133,124,918 - 133,418,748 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X136,706,854 - 137,000,684 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X134,281,915 - 134,575,023 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X138,675,326 - 138,972,774 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX138,677,580 - 138,972,684 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X138,733,912 - 139,028,075 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X138,268,438 - 138,566,049 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX129,889,782 - 130,179,847 (-)NCBICelera
Cytogenetic MapXq36NCBI
HS6ST2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X132,626,015 - 132,961,370 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX132,626,015 - 132,961,395 (-)EnsemblGRCh38hg38GRCh38
GRCh37X131,760,043 - 132,095,398 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X131,587,719 - 131,923,093 (-)NCBINCBI36Build 36hg18NCBI36
CeleraX132,146,408 - 132,481,789 (-)NCBICelera
Cytogenetic MapXq26.2NCBI
HuRefX121,164,083 - 121,496,636 (-)NCBIHuRef
CHM1_1X131,671,551 - 132,006,998 (-)NCBICHM1_1
T2T-CHM13v2.0X130,950,680 - 131,286,084 (-)NCBIT2T-CHM13v2.0
Hs6st2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X50,476,084 - 50,770,643 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX50,476,089 - 50,770,733 (-)EnsemblGRCm39 Ensembl
GRCm38X51,386,637 - 51,681,705 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX51,387,212 - 51,681,856 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X48,740,389 - 49,034,779 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X47,631,840 - 47,925,107 (-)NCBIMGSCv36mm8
CeleraX38,808,280 - 39,103,506 (-)NCBICelera
Cytogenetic MapXA5NCBI
cM MapX28.04NCBI
Hs6st2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554732,002,725 - 2,289,662 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554732,002,475 - 2,291,868 (+)NCBIChiLan1.0ChiLan1.0
HS6ST2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1X132,054,511 - 132,372,243 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X121,757,028 - 122,090,371 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X132,063,409 - 132,396,038 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX132,065,614 - 132,395,772 (-)Ensemblpanpan1.1panPan2
HS6ST2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X103,529,705 - 103,816,049 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX103,531,378 - 103,815,538 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX89,701,832 - 89,987,973 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X105,389,057 - 105,672,488 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX105,389,174 - 105,672,467 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X102,799,821 - 103,086,005 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X104,675,560 - 104,961,216 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X104,447,839 - 104,734,667 (-)NCBIUU_Cfam_GSD_1.0
Hs6st2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X101,700,046 - 101,981,296 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366911,976,449 - 2,255,144 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366911,976,449 - 2,257,303 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HS6ST2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX108,757,821 - 109,044,056 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X108,755,577 - 109,043,976 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X124,748,947 - 124,840,520 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HS6ST2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X107,779,998 - 108,122,567 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366606545,266,575 - 45,613,462 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hs6st2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462479712,358,725 - 12,665,049 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462479712,356,538 - 12,665,283 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Hs6st2
771 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:98
Count of miRNA genes:79
Interacting mature miRNAs:88
Transcripts:ENSRNOT00000040165
Prediction methods:Microtar, Miranda, Pita, 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
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X93956491138956491Rat
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX100567703150256146Rat
1598809Memor15Memory QTL 154.4exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X103312877148312877Rat
1598856Memor1Memory QTL 11.9exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)X103312877148312877Rat
738029Stresp2Stress response QTL 23.40.0004stress-related behavior trait (VT:0010451)defensive burying - approachX112934952138400867Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X113937816152453651Rat
634346Insul4Insulin level QTL 40blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)X126975089152453651Rat

Markers in Region
DXGot103  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X131,228,069 - 131,228,281 (+)MAPPERmRatBN7.2
Rnor_6.0X138,939,137 - 138,939,348NCBIRnor6.0
Rnor_5.0X138,994,443 - 138,994,654UniSTSRnor5.0
RGSC_v3.4X138,532,734 - 138,532,945UniSTSRGSC3.4
CeleraX130,146,279 - 130,146,490UniSTS
Cytogenetic MapXq36UniSTS
RH139153  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X131,018,631 - 131,018,817 (+)MAPPERmRatBN7.2
Rnor_6.0X138,727,600 - 138,727,785NCBIRnor6.0
Rnor_5.0X138,786,186 - 138,786,371UniSTSRnor5.0
RGSC_v3.4X138,318,682 - 138,318,867UniSTSRGSC3.4
CeleraX129,940,020 - 129,940,205UniSTS
Cytogenetic MapXq36UniSTS
Hs6st2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X130,968,960 - 130,969,181 (+)MAPPERmRatBN7.2
Rnor_6.0X138,677,745 - 138,677,965NCBIRnor6.0
Rnor_5.0X138,736,331 - 138,736,551UniSTSRnor5.0
CeleraX129,890,358 - 129,890,578UniSTS
Cytogenetic MapXq36UniSTS


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 20 2 2 11 2 68 14 16
Low 1 20 25 16 8 16 8 10 6 19 17 11 8
Below cutoff 1 2 29 23 23 1 2 8

Sequence


RefSeq Acc Id: ENSRNOT00000040165   ⟹   ENSRNOP00000043184
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX130,968,385 - 131,261,492 (-)Ensembl
Rnor_6.0 EnsemblX138,677,580 - 138,972,684 (-)Ensembl
RefSeq Acc Id: NM_001191726   ⟹   NP_001178655
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X130,968,385 - 131,261,492 (-)NCBI
Rnor_6.0X138,677,169 - 138,972,684 (-)NCBI
Rnor_5.0X138,733,912 - 139,028,075 (-)NCBI
CeleraX129,889,782 - 130,179,847 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006257578   ⟹   XP_006257640
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X130,966,547 - 131,261,614 (-)NCBI
Rnor_6.0X138,675,326 - 138,972,774 (-)NCBI
Rnor_5.0X138,733,912 - 139,028,075 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601970   ⟹   XP_017457459
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X130,966,547 - 131,261,629 (-)NCBI
Rnor_6.0X138,675,326 - 138,972,774 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601971   ⟹   XP_017457460
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X130,966,547 - 131,261,626 (-)NCBI
Rnor_6.0X138,675,326 - 138,972,774 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601972   ⟹   XP_017457461
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X130,966,547 - 131,260,833 (-)NCBI
Rnor_6.0X138,675,326 - 138,972,068 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601973   ⟹   XP_017457462
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X130,966,547 - 131,260,471 (-)NCBI
Rnor_6.0X138,675,326 - 138,971,657 (-)NCBI
Sequence:
RefSeq Acc Id: NP_001178655   ⟸   NM_001191726
- UniProtKB: D3ZEK5 (UniProtKB/TrEMBL),   A6JMT6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006257640   ⟸   XM_006257578
- Peptide Label: isoform X3
- UniProtKB: A6JMT5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457459   ⟸   XM_017601970
- Peptide Label: isoform X1
- UniProtKB: A6JMT6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457460   ⟸   XM_017601971
- Peptide Label: isoform X2
- UniProtKB: A6JMT5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457461   ⟸   XM_017601972
- Peptide Label: isoform X4
- UniProtKB: A6JMT6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457462   ⟸   XM_017601973
- Peptide Label: isoform X5
- UniProtKB: A6JMT6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000043184   ⟸   ENSRNOT00000040165

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZEK5-F1-model_v2 AlphaFold D3ZEK5 1-660 view protein structure

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:1564397 AgrOrtholog
BioCyc Gene G2FUF-1045 BioCyc
BioCyc Pathway PWY-6558 [heparan sulfate biosynthesis] BioCyc
BioCyc Pathway Image PWY-6558 BioCyc
Ensembl Genes ENSRNOG00000030880 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000040165 ENTREZGENE
  ENSRNOT00000040165.5 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:302489 UniProtKB/TrEMBL
NCBI Gene 302489 ENTREZGENE
PANTHER HEPARAN-SULFATE 6-O-SULFOTRANSFERASE 2 UniProtKB/TrEMBL
  HS6ST UniProtKB/TrEMBL
Pfam Sulfotransfer_2 UniProtKB/TrEMBL
PhenoGen Hs6st2 PhenoGen
RatGTEx ENSRNOG00000030880 RatGTEx
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt A6JMT5 ENTREZGENE, UniProtKB/TrEMBL
  A6JMT6 ENTREZGENE, UniProtKB/TrEMBL
  D3ZEK5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-06 Hs6st2  heparan sulfate 6-O-sulfotransferase 2  RGD1564397_predicted  similar to heparan sulfate 6-O-sulfotransferase 2 isoform S (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 RGD1564397_predicted  similar to heparan sulfate 6-O-sulfotransferase 2 isoform S (predicted)  LOC683774  similar to Heparan-sulfate 6-O-sulfotransferase 2 (HS6ST-2)  Data merged from RGD:1583321 1643240 APPROVED
2006-11-19 LOC683774  similar to Heparan-sulfate 6-O-sulfotransferase 2 (HS6ST-2)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-07 RGD1564397_predicted  similar to heparan sulfate 6-O-sulfotransferase 2 isoform S (predicted)  LOC302489  similar to heparan sulfate 6-O-sulfotransferase 2 isoform S  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC302489  similar to heparan sulfate 6-O-sulfotransferase 2 isoform S      Symbol and Name status set to provisional 70820 PROVISIONAL