Bss87 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Bss87 (Bone structure and strength QTL 87) Rattus norvegicus

Symbol: Bss87
Name: Bone structure and strength QTL 87
RGD ID: 4889929
Trait: tibia area   (VT:1000281)    
Measurement Type: tibia-fibula cortical bone endosteal cross-sectional area   (CMO:0001722)    
LOD Score: 6.7
P Value: Not Available
Variance: Not Available
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8146,302,615 - 91,302,615RGD_MAPPER_PIPELINE
mRatBN7.2153,895,117 - 82,174,945RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.0153,851,348 - 83,657,083RGD_MAPPER_PIPELINERnor6.0
Rnor_5.0155,091,281 - 84,871,565RGDRnor5.0
RGSC_v3.4148,777,689 - 81,947,972RGDRGSC3.4
Cross Type: Not Available
Strains Crossed: GK/KyoSwe F344/DuCrlSwe 
JBrowse: View Region in Genome Browser (JBrowse)
Model




  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss87Ratosteoporosis  IAGP 4889918 RGD 

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss87Ratdecreased bone strength  IDA 4889918 RGD 

Clinical Measurement
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss87Rattibia-fibula cortical bone endosteal cross-sectional area  IDA 4889918 RGD 

Experimental Condition
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss87Ratcontrolled bile acid content diet  IDA 488991805%RGD 
Bss87Ratcontrolled cholesterol content diet  IDA 48899182% RGD 
Bss87Ratcontrolled olive oil content diet  IDA 488991820% RGD 

Measurement Method
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss87Ratquantitative computed tomography  IDA 4889918 RGD 

Rat Strain
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss87RatF344/DuCrlSwe  IEA 4889918 RGD 
Bss87RatGK/KyoSwe  IEA 4889918 RGD 

Vertebrate Trait
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss87Rattibia area  IDA 4889918 RGD 


#
Reference Title
Reference Citation
1. Genetic loci for bone architecture determined by three-dimensional CT in crosses with the diabetic GK rat. Lagerholm S, etal., Bone. 2010 Dec;47(6):1039-47. Epub 2010 Aug 10.


1 to 20 of 814 rows
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD ID
Symbol
Name
Chr
Start
Stop
Species
41358263LOC120100106uncharacterized LOC12010010615383994353906439Rat
708561Afdnafadin, adherens junction formation factor15390534454034216Rat
41297741LOC120100104sperm motility kinase Y-like15408241354992728Rat
9306135LOC103694999uncharacterized LOC10369499915413935054228159Rat
1592591Vom2r7vomeronasal 2 receptor, 715429248454321356Rat
1626026Vom2r-ps15vomeronasal 2 receptor, pseudogene 1515441160154412412Rat
2316469Vom1r-ps2vomeronasal 1 receptor pseudogene 215452185454522753Rat
1359116Vom1r1vomeronasal 1 receptor 115454317354544143Rat
1561767Polr3g-ps1RNA polymerase III subunit G, pseudogene 115455194254552612Rat
2316468Vom1r-ps3vomeronasal 1 receptor pseudogene 315465816854659198Rat
41359684Rnu6-894RNA, U6 small nuclear 89415467191154672008Rat
1591372Vom2r8vomeronasal 2 receptor, 815468633054725985Rat
1626025Vom2r-ps17vomeronasal 2 receptor, pseudogene 1715475849254759374Rat
1626058Vom2r-ps18vomeronasal 2 receptor, pseudogene 1815476397354790926Rat
1591347Vom2r9vomeronasal 2 receptor, 915485828654876546Rat
11361878Fpr2-ps3formyl peptide receptor 2, pseudogene 315490085354901858Rat
1593138Zswim5-ps1zinc finger, SWIM-type containing 5, pseudogene 115491844454923515Rat
41288670Smokyl-ps1sperm motility kinase Y like, pseudogene 115497810954992728Rat
15901754930488N24RiklRIKEN cDNA 4930488N24 gene like15501996455023500Rat
6497368LOC100910657sperm motility kinase Y-like15502005155039555Rat

1 to 20 of 814 rows
1 to 20 of 588 rows
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Expected Size
Chr
Start
Stop
Species
Match
10279D1Wox1214717759307977593226Ratregion
10280D1Arb3525017759298477593234Ratregion
10281D1Mgh2719517759876677598961Ratregion
10332D1Arb3229317786449677864789Ratregion
10333D1Arb3324617787625477876500Ratregion
10334D1Wox1420617843047178430669Ratregion
10334D1Wox1420617844904778449238Ratregion
10335D1Arb3632717843042478430754Ratregion
10337D1Mgh514217843053678430678Ratregion
10442D1Wox1620218217474382174945Ratregion
10444D1Wox178318159422681594309Ratregion
10646D1Wox3011517880456978804684Ratregion
11047D2Mit1320915679441956794475Ratregion
11144D1Wox1114716583292965833076Ratregion
11145D1Arb3130216583290165833203Ratregion
33872D1Mit3321516474374564743958Ratregion
33872D1Mit3321516487235364872485Ratregion
33931D1Mit108515683509656835181Ratregion
11326D1Wox1338017550544975505830Ratregion
36085D1Rat9518516812322968123414Ratregion
1 to 20 of 588 rows

Flank 1: (D1Rat20)
Rat AssemblyChrPosition (strand)Source
mRatBN7.2153,895,117 - 53,895,281 (-)MAPPER
Rnor_6.0153,851,348 - 53,851,511NCBI
Rnor_5.0155,091,281 - 55,091,444UniSTS
RGSC_v3.4148,777,689 - 48,777,853RGD
RGSC_v3.4148,777,690 - 48,777,853UniSTS
RGSC_v3.1148,780,635 - 48,780,798RGD
Celera150,493,924 - 50,494,087UniSTS
RH 3.4 Map1641.4UniSTS
RH 3.4 Map1641.4RGD
RH 2.0 Map1355.9RGD
SHRSP x BN Map127.2RGD
FHH x ACI Map130.3199RGD
Flank 2: (D1Wox16)
Rat AssemblyChrPosition (strand)Source
GRCr8191,302,413 - 91,302,615 (+)Marker Load Pipeline
mRatBN7.2182,174,743 - 82,174,945 (+)MAPPER
Rnor_6.0183,656,882 - 83,657,083NCBI
Rnor_5.0184,871,364 - 84,871,565UniSTS
RGSC_v3.4181,947,770 - 81,947,972RGD
RGSC_v3.4181,947,771 - 81,947,972UniSTS
RGSC_v3.1182,025,881 - 82,026,083RGD
Celera176,593,887 - 76,594,088UniSTS
RH 3.4 Map1826.1RGD
RH 3.4 Map1826.1UniSTS
RH 2.0 Map1515.9RGD
Cytogenetic Map1q21UniSTS


1 to 10 of 64 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1331732Srn4Serum renin concentration QTL 44.467renin activity (VT:0005581)plasma renin activity level (CMO:0000116)13523959878430678Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15925874115540829Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)14939317294393172Rat
1582234Gluco18Glucose level QTL 183.40.0003blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)178479925123479925Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)130882023123479925Rat
4889929Bss87Bone structure and strength QTL 876.7tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)15389511782174945Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149393172159356837Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)150910886060548Rat
1354643Foco2Food consumption QTL 27.170.0001eating behavior trait (VT:0001431)food intake rate (CMO:0000427)13344984878449848Rat

1 to 10 of 64 rows


Note Type Note Reference
qtl_general number of animals used: 19 parental GK, 20 parental F344, 37 F1 and 206 F2 rats 4889918
qtl_general lineage: F1 animals from both the reciprocal crosses were taken; 2 seperate F2 intercrosses were generated one from grandmaternal GK and grandpaternal F344 other from grandmaternal F344 and grandpaternal GK 4889918
qtl_general measurement method: at 4 months of age rats were given a fat enriched diet after 90 days they were sacrificed and left tibia was scanned in a CT unit (Somatom Sensation 64, Siemens Ag, Erlangen, Germany) 4889918
qtl_general software used: images were scanned Analyze version 5.0 4889918
qtl_general this region (55-67 cM) is determined only in F2 males 4889918