Ctsb (cathepsin B) - Rat Genome Database
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Gene: Ctsb (cathepsin B) Rattus norvegicus
Analyze
Symbol: Ctsb
Name: cathepsin B
RGD ID: 621509
Description: Exhibits several functions, including cysteine-type endopeptidase activity; kininogen binding activity; and protein self-association. Involved in several processes, including cellular response to mechanical stimulus; response to ethanol; and response to interleukin-4. Localizes to several cellular components, including apical plasma membrane; external side of plasma membrane; and sarcolemma. Colocalizes with caveola and perinuclear region of cytoplasm. Used to study hepatocellular carcinoma and high grade glioma. Biomarker of several diseases, including cerebrovascular disease (multiple); fascioliasis; fatty liver disease; polycystic kidney disease; and renal tubular acidosis. Human ortholog(s) of this gene implicated in diabetes mellitus. Orthologous to human CTSB (cathepsin B); PARTICIPATES IN chaperone mediated autophagy pathway; antigen processing and presentation pathway; INTERACTS WITH (-)-epigallocatechin 3-gallate; 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: cathepsin B1; RSG-2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
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
mRatBN7.21537,389,636 - 37,410,508 (+)NCBI
Rnor_6.0 Ensembl1546,316,741 - 46,337,612 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01546,316,741 - 46,337,613 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01550,081,535 - 50,102,407 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41542,402,829 - 42,423,701 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11542,418,600 - 42,439,400 (+)NCBI
Celera1537,073,910 - 37,094,782 (+)NCBICelera
Cytogenetic Map15p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (EXP)
(S)-nicotine  (ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine  (EXP)
3,3'-diindolylmethane  (ISO)
3,4-methylenedioxymethamphetamine  (EXP,ISO)
3-methyladenine  (ISO)
4-aminopyridine  (EXP)
4-hydroxyphenyl retinamide  (ISO)
4-tert-Octylphenol  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (ISO)
7,9-dihydro-1H-purine-2,6,8(3H)-trione  (ISO)
8'-apo-beta,psi-caroten-8'-al  (ISO)
acetamide  (EXP)
acetylsalicylic acid  (ISO)
acrolein  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
aloxistatin  (ISO)
alprazolam  (ISO)
aluminium sulfate (anhydrous)  (ISO)
ammonium chloride  (EXP)
amodiaquine  (ISO)
amphibole asbestos  (EXP)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
ATP  (ISO)
atrazine  (ISO)
azathioprine  (ISO)
azetidine  (ISO)
azithromycin  (EXP)
bafilomycin A1  (ISO)
benzo[a]pyrene  (ISO)
beta-carotene  (ISO)
bisphenol A  (EXP,ISO)
bleomycin A2  (ISO)
bortezomib  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
calcitriol  (ISO)
calcium dichloride  (ISO)
camptothecin  (ISO)
carbamazepine  (ISO)
carbon disulfide  (ISO)
carbon nanotube  (ISO)
ceruletide  (EXP)
chloroacetaldehyde  (ISO)
chloropicrin  (ISO)
chloroquine  (EXP,ISO)
cholesterol  (ISO)
choline  (EXP)
chondroitin sulfate  (ISO)
ciprofibrate  (ISO)
cis-caffeic acid  (EXP)
cisplatin  (EXP,ISO)
clobetasol  (ISO)
clofibrate  (ISO)
clofibric acid  (EXP)
cobalt dichloride  (ISO)
cocaine  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
coumarin  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
curcumin  (EXP,ISO)
cycloheximide  (EXP)
cyclosporin A  (ISO)
cypermethrin  (ISO)
D-glucose  (ISO)
dactolisib  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
dichlorine  (EXP)
diethylstilbestrol  (ISO)
dioxygen  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
ethanol  (EXP,ISO)
flavonoids  (EXP)
flutamide  (ISO)
folic acid  (EXP,ISO)
fulvestrant  (ISO)
fumonisin B1  (ISO)
genistein  (EXP,ISO)
gentamycin  (EXP)
glucose  (ISO)
glyphosate  (ISO)
graphite  (ISO)
hydrogen peroxide  (EXP)
hydroxychloroquine  (ISO)
hypochlorous acid  (ISO)
imiquimod  (ISO)
Indeno[1,2,3-cd]pyrene  (ISO)
indometacin  (ISO)
isoprenaline  (EXP,ISO)
kainic acid  (EXP)
L-methionine  (EXP,ISO)
leupeptin  (ISO)
lipopolysaccharide  (ISO)
lutein  (ISO)
LY294002  (ISO)
melatonin  (ISO)
mercury atom  (ISO)
mercury dichloride  (ISO)
mercury(0)  (ISO)
metam  (ISO)
methoxychlor  (EXP)
morphine  (EXP)
morusin  (ISO)
N,N-diethyl-m-toluamide  (EXP)
N-acetyl-L-cysteine  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
NADP zwitterion  (EXP)
NADP(+)  (EXP)
naringin  (EXP)
nickel atom  (ISO)
nickel sulfate  (ISO)
nicotine  (ISO)
okadaic acid  (ISO)
ozone  (EXP)
p-tert-Amylphenol  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
pepstatin A  (ISO)
perfluorooctanoic acid  (ISO)
permethrin  (EXP)
phenacetin  (EXP)
phenobarbital  (ISO)
phenylhydrazine  (EXP)
phenylmercury acetate  (ISO)
phenytoin  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
Pyridostigmine bromide  (EXP)
pyrimethamine  (ISO)
quercetin  (ISO)
quercitrin  (ISO)
quizartinib  (ISO)
raloxifene  (EXP)
retinyl acetate  (ISO)
rotenone  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
silibinin  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (EXP)
sodium dichromate  (ISO)
Soman  (EXP)
succimer  (ISO)
sulindac  (ISO)
tamoxifen  (ISO)
taurine  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (ISO)
theophylline  (ISO)
thioacetamide  (EXP)
Tiron  (ISO)
titanium dioxide  (ISO)
tobramycin  (EXP)
trans-caffeic acid  (EXP)
trichloroethene  (ISO)
triclosan  (ISO)
trifluridine  (ISO)
troglitazone  (ISO)
urethane  (ISO)
valproic acid  (ISO)
Y-27632  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
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20. GOA data from the GO Consortium
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33. Jormsjo S, etal., Am J Pathol. 2002 Sep;161(3):939-45.
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35. Lehtinen MK, etal., J Neurosci. 2009 May 6;29(18):5910-5.
36. Li-Korotky HS, etal., Laryngoscope 2004 Jun;114(6):1032-6.
37. Linke M, etal., J Cell Sci 2002 Dec 15;115(Pt 24):4877-89.
38. Ma J, etal., Neurochem Res. 2007 Feb;32(2):311-20. Epub 2006 Nov 4.
39. Maes K, etal., Am J Respir Crit Care Med. 2007 Jun 1;175(11):1134-8. Epub 2007 Mar 22.
40. Mahurkar S, etal., BMC Med Genet. 2008 Aug 16;9:80.
41. Masini M, etal., Diabetologia. 2009 Jun;52(6):1083-6. Epub 2009 Apr 15.
42. Mathur PP, etal., Biochem Mol Biol Int. 1997 Jun;42(2):217-33.
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46. NCBI rat LocusLink and RefSeq merged data July 26, 2002
47. Nishimura Y, etal., Biol Pharm Bull. 1995 Jun;18(6):829-36.
48. Ohashi A, etal., Biochem Biophys Res Commun. 2003 Jun 20;306(1):98-103.
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50. Pipeline to import KEGG annotations from KEGG into RGD
51. Punithavathi VR and Prince PS, Life Sci. 2009 Dec 1.
52. Qi L and Zhang XD, Acta Biochim Biophys Sin (Shanghai). 2014 Feb;46(2):83-91. doi: 10.1093/abbs/gmt133. Epub 2013 Dec 8.
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54. RGD automated data pipeline
55. RGD automated import pipeline for gene-chemical interactions
56. Sakamoto M, etal., Neurosci Lett. 2008 Sep 19;442(3):292-6. Epub 2008 Jul 11.
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Additional References at PubMed
PMID:1639824   PMID:1837142   PMID:2350688   PMID:6203523   PMID:6574504   PMID:7890620   PMID:7890671   PMID:8612130   PMID:8740363   PMID:8811434   PMID:9034150   PMID:9310336  
PMID:12782676   PMID:14586591   PMID:14651853   PMID:14720218   PMID:15255544   PMID:15614436   PMID:15831716   PMID:17285857   PMID:18060871   PMID:18338260   PMID:18363826   PMID:18782536  
PMID:19199708   PMID:21217776   PMID:21374014   PMID:21415591   PMID:21492153   PMID:22270907   PMID:22952693   PMID:23211306   PMID:23337787   PMID:23376485   PMID:23533145   PMID:23748042  
PMID:23986436   PMID:24006456   PMID:24616078   PMID:25713304   PMID:28618037   PMID:28835281   PMID:29375046   PMID:30353345   PMID:31302164  


Genomics

Comparative Map Data
Ctsb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21537,389,636 - 37,410,508 (+)NCBI
Rnor_6.0 Ensembl1546,316,741 - 46,337,612 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01546,316,741 - 46,337,613 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01550,081,535 - 50,102,407 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41542,402,829 - 42,423,701 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11542,418,600 - 42,439,400 (+)NCBI
Celera1537,073,910 - 37,094,782 (+)NCBICelera
Cytogenetic Map15p12NCBI
CTSB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl811,842,524 - 11,869,533 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl811,842,524 - 11,869,448 (-)EnsemblGRCh38hg38GRCh38
GRCh38811,842,524 - 11,868,087 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37811,700,033 - 11,725,596 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36811,737,442 - 11,763,055 (-)NCBINCBI36hg18NCBI36
Build 34811,739,235 - 11,763,044NCBI
Celera810,829,316 - 10,854,967 (-)NCBI
Cytogenetic Map8p23.1NCBI
HuRef810,630,970 - 10,656,616 (-)NCBIHuRef
CHM1_1811,765,442 - 11,791,103 (-)NCBICHM1_1
Ctsb
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391463,359,911 - 63,383,372 (+)NCBIGRCm39mm39
GRCm39 Ensembl1463,359,911 - 63,383,372 (+)Ensembl
GRCm381463,122,462 - 63,145,923 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1463,122,462 - 63,145,923 (+)EnsemblGRCm38mm10GRCm38
MGSCv371463,741,302 - 63,764,758 (+)NCBIGRCm37mm9NCBIm37
MGSCv361462,076,575 - 62,100,031 (+)NCBImm8
Celera1460,885,230 - 60,908,693 (+)NCBICelera
Cytogenetic Map14D1NCBI
cM Map1433.24NCBI
Ctsb
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540353,085,574 - 53,093,809 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540353,086,236 - 53,100,217 (-)NCBIChiLan1.0ChiLan1.0
CTSB
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Mhudiblu_PPA_v087,333,498 - 7,359,264 (+)NCBIMhudiblu_PPA_v0panPan3
CTSB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2526,048,253 - 26,055,801 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12526,048,237 - 26,056,570 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CTSB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1415,011,711 - 15,034,737 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11415,014,139 - 15,035,081 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21416,202,844 - 16,223,498 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CTSB
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.187,246,076 - 7,269,655 (+)NCBI
ChlSab1.1 Ensembl87,246,013 - 7,268,854 (+)Ensembl
Ctsb
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475825,366,120 - 25,384,554 (-)NCBI

Position Markers
RH129236  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01546,337,320 - 46,337,522NCBIRnor6.0
Rnor_5.01550,102,114 - 50,102,316UniSTSRnor5.0
RGSC_v3.41542,423,408 - 42,423,610UniSTSRGSC3.4
Celera1537,094,489 - 37,094,691UniSTS
Cytogenetic Map15p12UniSTS
RH130291  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01546,337,433 - 46,337,612NCBIRnor6.0
Rnor_5.01550,102,227 - 50,102,406UniSTSRnor5.0
RGSC_v3.41542,423,521 - 42,423,700UniSTSRGSC3.4
Celera1537,094,602 - 37,094,781UniSTS
Cytogenetic Map15p12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15162301382Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15232787753535766Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)15388113148881131Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)151071919155719191Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151549236072568189Rat
9590272Scort14Serum corticosterone level QTL 142.780.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)151698090761980907Rat
8694427Bw163Body weight QTL 1634.820.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)151698090761980907Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151724964162249641Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151724964162249641Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151724964162249641Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151809320881255430Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151851391388036354Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)152102134252831189Rat
10755503Bp391Blood pressure QTL 3912.37arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)152377896946825072Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1526381041106550657Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1526381041106550657Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)1526381041106550657Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152870974173709741Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)153321910189640841Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)153321910189640841Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)153321910189640841Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)153321910189640841Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)153321910189640841Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)153948079762596410Rat
2293686Bmd36Bone mineral density QTL 367.40.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)153974955779033707Rat
2293691Bmd37Bone mineral density QTL 376.60.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)153974955779033707Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)154106809486068094Rat
7411725Strs7Sensitivity to stroke QTL 73.8cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)154275724156027084Rat
2306968Anxrr23Anxiety related response QTL 234.83reflex trait (VT:0001961)amplitude of the acoustic startle response (CMO:0001520)154309747052831189Rat
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1543097470106550657Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:116
Count of miRNA genes:85
Interacting mature miRNAs:100
Transcripts:ENSRNOT00000014177
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 5 1 1
Medium 3 43 57 41 19 41 8 11 74 30 40 10 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000014177   ⟹   ENSRNOP00000014178
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1546,316,741 - 46,337,612 (+)Ensembl
RefSeq Acc Id: NM_022597   ⟹   NP_072119
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21537,389,636 - 37,410,508 (+)NCBI
Rnor_6.01546,316,741 - 46,337,613 (+)NCBI
Rnor_5.01550,081,535 - 50,102,407 (+)NCBI
RGSC_v3.41542,402,829 - 42,423,701 (+)RGD
Celera1537,073,910 - 37,094,782 (+)RGD
Sequence:
RefSeq Acc Id: XM_017599796   ⟹   XP_017455285
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01546,330,892 - 46,337,613 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_072119 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA40993 (Get FASTA)   NCBI Sequence Viewer  
  AAH72490 (Get FASTA)   NCBI Sequence Viewer  
  CAA57792 (Get FASTA)   NCBI Sequence Viewer  
  EDL85314 (Get FASTA)   NCBI Sequence Viewer  
  P00787 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_072119   ⟸   NM_022597
- Peptide Label: preproprotein
- UniProtKB: Q6IN22 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017455285   ⟸   XM_017599796
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000014178   ⟸   ENSRNOT00000014177
Protein Domains
Pept_C1

Transcriptome

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

Promoters
RGD ID:13699775
Promoter ID:EPDNEW_R10297
Type:initiation region
Name:Ctsb_1
Description:cathepsin B
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_6.01546,316,798 - 46,316,858EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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: 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)
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
SHRSP/Gcrc (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
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
SS/JrHsdMcwi (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)
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)
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
WKY/Gcrc (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
WKY/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
WKY/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
WKY/NHsd (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
WN/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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621509 AgrOrtholog
Ensembl Genes ENSRNOG00000010331 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000014178 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000014177 ENTREZGENE, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7097817 IMAGE-MGC_LOAD
InterPro Papain-like_cys_pep_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pept_asp_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pept_cys_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pept_his_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Peptidase_C1A_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Propeptide_C1A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:64529 UniProtKB/TrEMBL
MGC_CLONE MGC:91684 IMAGE-MGC_LOAD
NCBI Gene 64529 ENTREZGENE
Pfam Peptidase_C1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Propeptide_C1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ctsb PhenoGen
PRINTS PAPAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE THIOL_PROTEASE_ASN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  THIOL_PROTEASE_CYS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  THIOL_PROTEASE_HIS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART Pept_C1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF54001 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt CATB_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q6IN22 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-01-20 Ctsb  cathepsin B      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Ctsb  cathepsin B      Symbol and Name status set to provisional 70820 PROVISIONAL