Hexb (hexosaminidase subunit beta) - Rat Genome Database

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Gene: Hexb (hexosaminidase subunit beta) Rattus norvegicus
Analyze
Symbol: Hexb
Name: hexosaminidase subunit beta
RGD ID: 1307607
Description: Exhibits beta-N-acetylglucosaminidase activity; carbohydrate binding activity; and identical protein binding activity. Involved in N-acetylglucosamine metabolic process. Localizes to lysosome. Human ortholog(s) of this gene implicated in Sandhoff disease and spinal muscular atrophy. Orthologous to human HEXB (hexosaminidase subunit beta); PARTICIPATES IN amino sugar metabolic pathway; ganglioside metabolic pathway; globoside metabolic pathway; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: beta-hexosaminidase subunit beta; beta-N-acetylhexosaminidase subunit beta; hexosaminidase B; hexosaminidase subunit B; LOC294673; N-acetyl-beta-glucosaminidase subunit beta
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
mRatBN7.2228,483,997 - 28,504,165 (-)NCBI
Rnor_6.0 Ensembl227,984,117 - 28,003,186 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0227,983,925 - 28,003,260 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0247,094,814 - 47,114,992 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4227,649,188 - 27,672,231 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1227,569,557 - 27,592,600 (-)NCBI
Celera224,525,921 - 24,545,955 (-)NCBICelera
Cytogenetic Map2q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
1,2-dimethylhydrazine  (ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,6-di-tert-butyl-4-methylphenol  (EXP)
2,6-dinitrotoluene  (EXP)
2-hydroxypropanoic acid  (ISO)
2-Methylaziridine  (EXP)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (ISO)
5-aza-2'-deoxycytidine  (ISO)
acrolein  (ISO)
all-trans-retinoic acid  (EXP)
alpha-pinene  (ISO)
ampicillin  (EXP)
Aroclor 1254  (ISO)
astemizole  (EXP)
atracurium  (ISO)
atrazine  (ISO)
azithromycin  (EXP)
beauvericin  (ISO)
benzo[a]pyrene  (ISO)
biphenyl-2-ol  (EXP)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bitertanol  (EXP)
Brodifacoum  (EXP)
buspirone  (EXP)
butylated hydroxyanisole  (EXP)
Butylparaben  (EXP)
cadmium atom  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
cetirizine  (EXP)
choline  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
clofibric acid  (EXP)
cupressuflavone  (ISO)
cyclosporin A  (EXP,ISO)
dexamethasone  (ISO)
dextromethorphan  (ISO)
dicrotophos  (ISO)
doxorubicin  (ISO)
enniatin  (ISO)
entinostat  (ISO)
ethanol  (ISO)
finasteride  (EXP)
flunarizine  (EXP)
flutamide  (EXP)
folic acid  (ISO)
furan  (EXP)
gamma-linolenic acid  (ISO)
gentamycin  (EXP)
glafenine  (EXP)
glyphosate  (EXP)
hydroxyzine  (EXP)
indometacin  (ISO)
ionomycin  (EXP,ISO)
KN-93  (EXP)
L-methionine  (ISO)
lead diacetate  (ISO)
lipopolysaccharide  (ISO)
metronidazole  (EXP)
Mibefradil  (EXP)
ML-7  (EXP)
N-(4-aminobutyl)-5-chloronaphthalene-2-sulfonamide  (EXP)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (EXP)
neomycin  (EXP)
nickel dichloride  (EXP)
Oxatomide  (EXP)
oxycodone  (EXP)
ozone  (ISO)
paracetamol  (ISO)
perfluorooctanoic acid  (EXP,ISO)
permethrin  (EXP)
phenobarbital  (ISO)
pirinixic acid  (ISO)
prothiofos  (EXP)
pyridaben  (EXP)
pyrimethamine  (ISO)
quercetin  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
rotenone  (EXP,ISO)
Salinomycin  (EXP)
silver atom  (ISO)
silver(0)  (ISO)
sodium fluoride  (ISO)
Soman  (EXP)
sunitinib  (ISO)
terbufos  (EXP)
tetrachloromethane  (EXP,ISO)
tetracycline  (ISO)
titanium dioxide  (ISO)
valproic acid  (ISO)
vancomycin  (EXP)
vecuronium bromide  (ISO)
Yessotoxin  (ISO)
zinc dichloride  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
acrosomal vesicle  (IEA,ISO)
azurophil granule  (IEA,ISO)
cortical granule  (IEA,ISO,ISS)
extracellular space  (IEA,ISO)
lysosome  (IDA,ISO)
membrane  (IEA,ISO)

References

Additional References at PubMed
PMID:6230359   PMID:7203014   PMID:7550345   PMID:8269854   PMID:8566348   PMID:8789434   PMID:8896570   PMID:9122231   PMID:9184660   PMID:9223328   PMID:9417048   PMID:9584189  
PMID:9645704   PMID:10021458   PMID:11854359   PMID:12477932   PMID:12617783   PMID:12657883   PMID:12756243   PMID:15155903   PMID:15198669   PMID:15489334   PMID:15748167   PMID:19710420  
PMID:19946888   PMID:23376485   PMID:23533145   PMID:25645918   PMID:26681805   PMID:29514215  


Genomics

Comparative Map Data
Hexb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2228,483,997 - 28,504,165 (-)NCBI
Rnor_6.0 Ensembl227,984,117 - 28,003,186 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0227,983,925 - 28,003,260 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0247,094,814 - 47,114,992 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4227,649,188 - 27,672,231 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1227,569,557 - 27,592,600 (-)NCBI
Celera224,525,921 - 24,545,955 (-)NCBICelera
Cytogenetic Map2q12NCBI
HEXB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl574,640,023 - 74,722,647 (+)EnsemblGRCh38hg38GRCh38
GRCh38574,640,023 - 74,721,288 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37573,935,848 - 74,017,113 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36574,016,767 - 74,052,869 (+)NCBINCBI36hg18NCBI36
Build 34574,016,766 - 74,052,869NCBI
Celera569,875,759 - 69,911,869 (+)NCBI
Cytogenetic Map5q13.3NCBI
HuRef569,185,979 - 69,222,054 (+)NCBIHuRef
CHM1_1573,368,412 - 73,449,974 (+)NCBICHM1_1
Hexb
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391397,312,839 - 97,334,865 (-)NCBIGRCm39mm39
GRCm39 Ensembl1397,312,839 - 97,334,865 (-)Ensembl
GRCm381397,176,331 - 97,198,357 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1397,176,331 - 97,198,357 (-)EnsemblGRCm38mm10GRCm38
MGSCv371397,946,286 - 97,968,312 (-)NCBIGRCm37mm9NCBIm37
MGSCv361398,277,106 - 98,298,969 (-)NCBImm8
Celera13100,809,364 - 100,830,755 (-)NCBICelera
Cytogenetic Map13D1NCBI
cM Map1350.66NCBI
Hexb
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542525,942,278 - 25,961,312 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542525,942,341 - 25,961,312 (-)NCBIChiLan1.0ChiLan1.0
HEXB
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1541,199,681 - 41,232,693 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl541,199,681 - 41,232,693 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0540,589,448 - 40,625,176 (-)NCBIMhudiblu_PPA_v0panPan3
HEXB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1257,221,809 - 57,248,432 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl257,222,186 - 57,248,417 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha254,199,623 - 54,228,736 (+)NCBI
ROS_Cfam_1.0257,746,022 - 57,775,171 (+)NCBI
UMICH_Zoey_3.1254,810,104 - 54,839,238 (+)NCBI
UNSW_CanFamBas_1.0255,573,246 - 55,602,349 (+)NCBI
UU_Cfam_GSD_1.0256,470,393 - 56,499,556 (+)NCBI
Hexb
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213188,915,295 - 188,940,491 (+)NCBI
SpeTri2.0NW_0049365491,918,482 - 1,943,665 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HEXB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl283,744,627 - 83,784,759 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1283,745,263 - 83,784,762 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2285,331,866 - 85,371,568 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HEXB
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1469,037,532 - 69,065,925 (+)NCBI
ChlSab1.1 Ensembl469,037,583 - 69,065,814 (+)Ensembl
Hexb
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624924195,406 - 219,232 (-)NCBI

Position Markers
RH127734  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2228,487,833 - 28,488,039 (+)MAPPER
Rnor_6.0227,987,762 - 27,987,967NCBIRnor6.0
Rnor_5.0247,098,651 - 47,098,856UniSTSRnor5.0
RGSC_v3.4227,653,025 - 27,653,230UniSTSRGSC3.4
Celera224,529,758 - 24,529,963UniSTS
RH 3.4 Map231.5UniSTS
Cytogenetic Map2q12UniSTS
RH139614  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2228,485,225 - 28,485,408 (+)MAPPER
Rnor_6.0227,985,154 - 27,985,336NCBIRnor6.0
Rnor_5.0247,096,043 - 47,096,225UniSTSRnor5.0
RGSC_v3.4227,650,417 - 27,650,599UniSTSRGSC3.4
Celera224,527,150 - 24,527,332UniSTS
RH 3.4 Map230.3UniSTS
Cytogenetic Map2q12UniSTS
RH140471  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2228,485,225 - 28,485,331 (+)MAPPER
Rnor_6.0227,985,154 - 27,985,259NCBIRnor6.0
Rnor_5.0247,096,043 - 47,096,148UniSTSRnor5.0
RGSC_v3.4227,650,417 - 27,650,522UniSTSRGSC3.4
Celera224,527,150 - 24,527,255UniSTS
Cytogenetic Map2q12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631682Bp115Blood pressure QTL 1154.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2135167060Rat
738010Lnnr3Liver neoplastic nodule remodeling QTL 32.94liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)2141179397Rat
61355Bp36Blood pressure QTL 362.9blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)23127638105149020Rat
9590080Insglur4Insulin/glucose ratio QTL 428.70.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)2368630848686308Rat
1600379Mcs18Mammary carcinoma susceptibility QTL 182.6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)2541733642777046Rat
738012Anxrr3Anxiety related response QTL 33.8exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)2789360052893600Rat
1578664Bmd9Bone mineral QTL density 95femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)2944467949615930Rat
1578671Bmd10Bone mineral density QTL 105.4femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)2944467968866454Rat
10755430Coatc6Coat color QTL 60.02576coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)21055527555555275Rat
731184Mamtr4Mammary tumor resistance QTL 40.0003mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)21423783059237830Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)216679272245624402Rat
1357990Ael1Aortic elastin QTL 13.10.00091aorta elastin amount (VT:0003905)aortic elastin21901646564016465Rat
731167Glom4Glomerulus QTL 42.40.0082kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)22027698165276981Rat
2300168Bmd47Bone mineral density QTL 476.60.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)22064137165641371Rat
7387318Stl32Serum triglyceride level QTL 323.20.0003blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)22261295267612952Rat
10402051Gdil2Gastrointestinal dilation QTL 2enteric ganglion morphology trait (VT:0001045)length of intestine affected by colonic aganglionosis to total length of colon ratio (CMO:0001836)22328064775687607Rat
1302794Stl27Serum triglyceride level QTL 274.40.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)223837491149614623Rat
1358894Kidm24Kidney mass QTL 244.03kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)223837491169852800Rat
1358899Kidm23Kidney mass QTL 233.88kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)223837491169852800Rat
1358901Cm38Cardiac mass QTL 382heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491169852800Rat
1358904Cm39Cardiac mass QTL 392.26heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491169852800Rat
1358910Kidm27Kidney mass QTL 275.77kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)223837491169852800Rat
1358911Kidm28Kidney mass QTL 285.42kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)223837491169852800Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491218957222Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491218957222Rat
1358887Bw50Body weight QTL 502.39body mass (VT:0001259)body weight (CMO:0000012)223837719169852670Rat
1358908Bw49Body weight QTL 493.36body mass (VT:0001259)body weight (CMO:0000012)223837719169852670Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)22618609783819822Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)22618609783819822Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)22618609783819822Rat
1354603Bp243Blood pressure QTL 2433.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)226186097135654963Rat
2290453Scl55Serum cholesterol level QTL 552.83blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)226186097142053534Rat
1331764Bp205Blood pressure QTL 2053.476arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)22626799543133606Rat
1643006Pain1Pain QTL 13.630.005mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)22626799548676716Rat
12879841Cm87Cardiac mass QTL 870.026heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)227161361148295267Rat
12879842Cm88Cardiac mass QTL 880.042heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)227161361148295267Rat
12879843Am3Aortic mass QTL 30.016aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)227161361148295267Rat
12879844Kidm62Kidney mass QTL 620.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)227161361148295267Rat
9590095Sffal3Serum free fatty acids level QTL 36.780.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)22776030172760301Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:22
Count of miRNA genes:18
Interacting mature miRNAs:22
Transcripts:ENSRNOT00000048554
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 3 43 51 35 19 35 8 11 74 35 38 11 8
Low 6 6 6 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000048554   ⟹   ENSRNOP00000044480
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl227,984,117 - 28,003,186 (-)Ensembl
RefSeq Acc Id: NM_001011946   ⟹   NP_001011946
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2228,483,997 - 28,504,165 (-)NCBI
Rnor_6.0227,983,925 - 28,003,260 (-)NCBI
Rnor_5.0247,094,814 - 47,114,992 (-)NCBI
RGSC_v3.4227,649,188 - 27,672,231 (-)RGD
Celera224,525,921 - 24,545,955 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001011946 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH79376 (Get FASTA)   NCBI Sequence Viewer  
  EDM10131 (Get FASTA)   NCBI Sequence Viewer  
  Q6AXR4 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001011946   ⟸   NM_001011946
- Peptide Label: precursor
- UniProtKB: Q6AXR4 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000044480   ⟸   ENSRNOT00000048554
Protein Domains
Glyco_hydro_20   Glycohydro_20b2

Transcriptome

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

Promoters
RGD ID:13691087
Promoter ID:EPDNEW_R1612
Type:initiation region
Name:Hexb_1
Description:hexosaminidase subunit beta
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_6.0228,003,257 - 28,003,317EPDNEW

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)
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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
Buf/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
COP/CrCrl (MCW & UW)
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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)
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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
F344/NRrrc (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
FHH/EurMcwi (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)
FHH/EurMcwi (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
FHL/EurMcwi (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)
FHL/EurMcwi (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
GH/OmrMcwi (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)
GK/Ox (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
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)
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)
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
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)
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
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:1307607 AgrOrtholog
Ensembl Genes ENSRNOG00000025274 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000044480 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000048554 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 3.30.379.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7110247 IMAGE-MGC_LOAD
InterPro Beta_hexosaminidase_sua/sub UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Glyco_hydro_20_cat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Glycoside_hydrolase_SF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Hex-like_dom2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HEX_eukaryotic_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:294673 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94872 IMAGE-MGC_LOAD
NCBI Gene 294673 ENTREZGENE
Pfam Glyco_hydro_20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Glycohydro_20b2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Hexb PhenoGen
PIRSF B-hxosamndse_ab_euk UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
PRINTS GLHYDRLASE20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF51445 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF55545 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt F1LR87_RAT UniProtKB/TrEMBL
  HEXB_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-05-11 Hexb  hexosaminidase subunit beta  Hexb  hexosaminidase B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Hexb  hexosaminidase B  Hexb_predicted  hexosaminidase B (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Hexb_predicted  hexosaminidase B (predicted)      Symbol and Name status set to approved 70820 APPROVED