Hpse (heparanase) - Rat Genome Database

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Gene: Hpse (heparanase) Rattus norvegicus
Analyze
Symbol: Hpse
Name: heparanase
RGD ID: 61969
Description: Exhibits heparanase activity. Predicted to be involved in several processes, including heparan sulfate proteoglycan catabolic process; positive regulation of osteoblast proliferation; and positive regulation of protein kinase B signaling. Predicted to localize to several cellular components, including heparanase complex; lysosome; and membrane raft. Orthologous to human HPSE (heparanase); PARTICIPATES IN syndecan signaling pathway; glycosaminoglycan degradation pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: endo-glucoronidase; Hep; heparanase-like; Hpa; LOC100362546
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
mRatBN7.2148,896,593 - 8,937,011 (+)NCBI
Rnor_6.0 Ensembl1410,534,423 - 10,575,224 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01410,534,358 - 10,576,686 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01410,483,116 - 10,523,890 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41410,144,322 - 10,185,115 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11410,144,321 - 10,185,115NCBI
Celera149,005,457 - 9,045,081 (+)NCBICelera
Cytogenetic Map14p22NCBI
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
1,1-dichloroethene  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-hydroxypropanoic acid  (ISO)
3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
7H-xanthine  (EXP)
9H-xanthine  (EXP)
acrolein  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
aldosterone  (EXP)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
amitriptyline  (EXP)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
Benzo[k]fluoranthene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butanal  (ISO)
cadmium dichloride  (EXP)
carbon nanotube  (ISO)
cisplatin  (ISO)
cobalt dichloride  (EXP,ISO)
dexamethasone  (ISO)
dibutyl phthalate  (EXP)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP)
flavonoids  (EXP)
folic acid  (ISO)
genistein  (EXP)
heparan sulfate  (EXP,ISO)
heparin  (ISO)
hydralazine  (ISO)
indole-3-methanol  (EXP)
indometacin  (ISO)
isoprenaline  (EXP)
lisinopril dihydrate  (EXP)
methamphetamine  (ISO)
methotrexate  (ISO)
NAD zwitterion  (EXP)
NAD(+)  (EXP)
nickel atom  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (ISO)
pentanal  (ISO)
phenylmercury acetate  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
propanal  (ISO)
quercetin  (ISO)
rac-lactic acid  (ISO)
rotenone  (EXP)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
spironolactone  (EXP)
sulforaphane  (ISO)
tetrachloromethane  (ISO)
thioacetamide  (EXP,ISO)
topotecan  (EXP)
trichostatin A  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:10395326   PMID:12213822   PMID:12773484   PMID:12927802   PMID:14522979   PMID:15044433   PMID:15126626   PMID:15292202   PMID:15728796   PMID:15793281   PMID:15877677   PMID:16320243  
PMID:16452201   PMID:16899518   PMID:17051139   PMID:17368723   PMID:17689495   PMID:18095597   PMID:18222122   PMID:18278514   PMID:18557927   PMID:18589009   PMID:19096032   PMID:19218500  
PMID:20130710   PMID:20309870   PMID:20634491   PMID:21424539   PMID:22339633   PMID:23063054   PMID:23471235   PMID:24115032   PMID:24608441   PMID:26638897   PMID:27979811   PMID:28720149  
PMID:29581478  


Genomics

Comparative Map Data
Hpse
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2148,896,593 - 8,937,011 (+)NCBI
Rnor_6.0 Ensembl1410,534,423 - 10,575,224 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01410,534,358 - 10,576,686 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01410,483,116 - 10,523,890 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41410,144,322 - 10,185,115 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11410,144,321 - 10,185,115NCBI
Celera149,005,457 - 9,045,081 (+)NCBICelera
Cytogenetic Map14p22NCBI
HPSE
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl483,292,461 - 83,335,153 (-)EnsemblGRCh38hg38GRCh38
GRCh38483,292,461 - 83,335,153 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37484,213,614 - 84,256,306 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36484,435,492 - 84,475,330 (-)NCBINCBI36hg18NCBI36
Build 34484,570,793 - 84,613,484NCBI
Celera481,506,894 - 81,546,444 (-)NCBI
Cytogenetic Map4q21.23NCBI
HuRef479,956,669 - 79,999,104 (-)NCBIHuRef
CHM1_1484,190,339 - 84,232,732 (-)NCBICHM1_1
Hpse
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395100,827,350 - 100,867,582 (-)NCBIGRCm39mm39
GRCm39 Ensembl5100,827,350 - 100,867,582 (-)Ensembl
GRCm385100,679,484 - 100,719,716 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5100,679,484 - 100,719,716 (-)EnsemblGRCm38mm10GRCm38
MGSCv375101,108,505 - 101,148,702 (-)NCBIGRCm37mm9NCBIm37
MGSCv365100,920,698 - 100,959,985 (-)NCBImm8
Celera598,006,862 - 98,047,031 (-)NCBICelera
Cytogenetic Map5E4NCBI
Hpse
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554746,367,467 - 6,394,395 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554746,367,467 - 6,394,395 (+)NCBIChiLan1.0ChiLan1.0
HPSE
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1446,709,621 - 46,755,157 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl446,709,621 - 46,755,157 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0440,863,491 - 40,905,693 (+)NCBIMhudiblu_PPA_v0panPan3
HPSE
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1327,166,437 - 7,199,659 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl327,167,856 - 7,199,665 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3234,685,950 - 34,719,173 (+)NCBI
ROS_Cfam_1.0327,187,761 - 7,220,727 (-)NCBI
UMICH_Zoey_3.1327,257,986 - 7,290,952 (-)NCBI
UNSW_CanFamBas_1.0327,127,254 - 7,160,461 (-)NCBI
UU_Cfam_GSD_1.03232,801,148 - 32,834,425 (+)NCBI
Hpse
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244052855,146,217 - 5,181,190 (+)NCBI
SpeTri2.0NW_0049367381,308,350 - 1,341,421 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HPSE
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8135,081,151 - 135,120,889 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18135,082,199 - 135,120,887 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28144,378,429 - 144,417,256 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HPSE
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1731,689,449 - 31,730,176 (-)NCBI
ChlSab1.1 Ensembl731,686,304 - 31,730,043 (-)Ensembl
Hpse
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624900296,626 - 335,624 (-)NCBI

Position Markers
AA690179  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2148,935,448 - 8,935,572 (+)MAPPER
Rnor_6.01410,575,124 - 10,575,247NCBIRnor6.0
Rnor_5.01410,522,328 - 10,522,451UniSTSRnor5.0
RGSC_v3.41410,183,553 - 10,183,676UniSTSRGSC3.4
Celera149,043,519 - 9,043,642UniSTS
Cytogenetic Map14p22UniSTS
RH141764  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2148,935,636 - 8,935,856 (+)MAPPER
Rnor_6.01410,575,312 - 10,575,531NCBIRnor6.0
Rnor_5.01410,522,516 - 10,522,735UniSTSRnor5.0
RGSC_v3.41410,183,741 - 10,183,960UniSTSRGSC3.4
Celera149,043,707 - 9,043,926UniSTS
RH 3.4 Map14152.28UniSTS
Cytogenetic Map14p22UniSTS
RH141824  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2148,929,533 - 8,929,714 (+)MAPPER
Rnor_6.01410,569,210 - 10,569,390NCBIRnor6.0
Rnor_5.01410,516,414 - 10,516,594UniSTSRnor5.0
RGSC_v3.41410,177,639 - 10,177,819UniSTSRGSC3.4
Celera149,037,605 - 9,037,785UniSTS
RH 3.4 Map14130.19UniSTS
Cytogenetic Map14p22UniSTS
RH128886  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2148,936,736 - 8,936,926 (+)MAPPER
Rnor_6.01410,576,412 - 10,576,601NCBIRnor6.0
Rnor_5.01410,523,616 - 10,523,805UniSTSRnor5.0
RGSC_v3.41410,184,841 - 10,185,030UniSTSRGSC3.4
Celera149,044,807 - 9,044,996UniSTS
RH 3.4 Map11174.7UniSTS
Cytogenetic Map14p22UniSTS
BE115323  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2148,925,000 - 8,925,150 (+)MAPPER
Rnor_6.01410,563,209 - 10,563,358NCBIRnor6.0
Rnor_5.01410,511,684 - 10,511,833UniSTSRnor5.0
Celera149,033,270 - 9,033,419UniSTS
RH 3.4 Map14152.88UniSTS
Cytogenetic Map14p22UniSTS
D21S1270  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2148,911,269 - 8,912,431 (+)MAPPER
Rnor_6.01410,549,451 - 10,550,610NCBIRnor6.0
Rnor_5.01410,498,209 - 10,499,368UniSTSRnor5.0
Celera149,019,591 - 9,020,750UniSTS
Cytogenetic Map14p22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300159Bmd61Bone mineral density QTL 615.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14127597761Rat
2300183Bmd60Bone mineral density QTL 605.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14127597761Rat
619619Rf4Renal disease susceptibility QTL 44.10.002total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14134403399Rat
9589814Gluco67Glucose level QTL 674.540.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14141333960Rat
7411573Bw139Body weight QTL 1394.70.001body mass (VT:0001259)body weight gain (CMO:0000420)14141333960Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14142766285Rat
71115Niddm15Non-insulin dependent diabetes mellitus QTL 154.8blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14222782512680613Rat
70204Niddm20Non-insulin dependent diabetes mellitus QTL 205.10.000008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14222782519230541Rat
724541Niddm53Non-insulin dependent diabetes mellitus QTL 530.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14483323310729268Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)14483323319909932Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)14483323319909932Rat
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14483323323004027Rat
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14483323326466248Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14483323333040042Rat
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14975643572854397Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin141053997755539977Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)141053997755539977Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:185
Count of miRNA genes:124
Interacting mature miRNAs:152
Transcripts:ENSRNOT00000002983
Prediction methods:Miranda, 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 3 4 12 4 19 4 3 11
Low 39 45 37 37 8 11 74 35 38 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002983   ⟹   ENSRNOP00000002983
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1410,534,423 - 10,575,224 (+)Ensembl
RefSeq Acc Id: NM_022605   ⟹   NP_072127
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2148,896,593 - 8,937,011 (+)NCBI
Rnor_6.01410,534,358 - 10,576,686 (+)NCBI
Rnor_5.01410,483,116 - 10,523,890 (+)NCBI
RGSC_v3.41410,144,322 - 10,185,115 (+)RGD
Celera149,005,457 - 9,045,081 (+)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_072127   ⟸   NM_022605
- Peptide Label: precursor
- UniProtKB: Q71RP1 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000002983   ⟸   ENSRNOT00000002983

Transcriptome

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

Promoters
RGD ID:13699192
Promoter ID:EPDNEW_R9716
Type:initiation region
Name:Hpse_1
Description:heparanase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01410,534,328 - 10,534,388EPDNEW

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)
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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
LEW/Crl (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
LEW/NCrlBR (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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
M520/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
MHS/Gib (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
MNS/Gib (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
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:61969 AgrOrtholog
Ensembl Genes ENSRNOG00000002188 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000002983 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002983 ENTREZGENE, UniProtKB/TrEMBL
InterPro Glyco_hydro_79 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Glycoside_hydrolase_SF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:64537 UniProtKB/Swiss-Prot
NCBI Gene 64537 ENTREZGENE
Pfam Glyco_hydro_79n UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Hpse PhenoGen
Superfamily-SCOP SSF51445 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC230485
UniProt F1M581_RAT UniProtKB/TrEMBL
  HPSE_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q9QZF8 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-04-17 Hpse  heparanase  LOC100362546  heparanase-like  Data Merged 737654 PROVISIONAL
2010-05-06 LOC100362546  heparanase-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2002-06-10 Hpse  heparanase      Name updated 70584 APPROVED
2001-12-06 Hpse  heparanase      Symbol updated to reflect Human and Mouse nomenclature 69665 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization activity suggests function in extralysosomal compartments 632901