Bss53 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Bss53 (Bone structure and strength QTL 53) Rattus norvegicus

Symbol: Bss53
Name: Bone structure and strength QTL 53
RGD ID: 2313072
Previously known as: Pqctm2
Trait: tibia length   (VT:0004357)    
Measurement Type: tibia length   (CMO:0000450)    
LOD Score: 4.3
P Value: 1.0E-4
Variance: Not Available
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2143,284,731 - 118,944,897RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.0143,579,208 - 126,240,667RGD_MAPPER_PIPELINERnor6.0
Rnor_5.0144,907,605 - 127,336,420RGDRnor5.0
RGSC_v3.4137,646,940 - 119,780,561RGDRGSC3.4
Cross Type: intercross
Strains Crossed: GK/KyoSwe F344/DuCrlSwe 




  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss53Ratosteoporosis  IAGP 2312767 RGD 

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss53Ratdecreased bone mass  IDA 2312767 RGD 
Bss53Ratdecreased bone strength  IDA 2312767 RGD 

Clinical Measurement
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss53Rattibia length  IDA 2312767 RGD 

Experimental Condition
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss53Ratcontrolled bile acid content diet  IDA 23127670.5%RGD 
Bss53Ratcontrolled cholesterol content diet  IDA 23127672%RGD 
Bss53Ratcontrolled olive oil content diet  IDA 231276720%RGD 

Measurement Method
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss53Ratin vivo caliper method  IDA 2312767 RGD 

Rat Strain
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss53RatF344/DuCrlSwe  IEA 2312767 RGD 
Bss53RatGK/KyoSwe  IEA 2312767 RGD 

Vertebrate Trait
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss53Rattibia length  IDA 2312767 RGD 


#
Reference Title
Reference Citation
1. Genetic regulation of bone traits is influenced by sex and reciprocal cross in F(2) progeny from GK and F344 rats. Lagerholm S, etal., J Bone Miner Res. 2009 Jun;24(6):1066-74.

Related QTL Description Reference
Bss55 maps to same region RGD:2312767
Bss54 maps to same region RGD:2312767
Bss58 maps to same region RGD:2312767
Bss57 maps to same region RGD:2312767
Bss56 maps to same region RGD:2312767
Bmd70 maps to same region RGD:2312767



1 to 20 of 1751 rows
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD ID
Symbol
Name
Chr
Start
Stop
Species
3234Oprm1opioid receptor, mu 114316005743413409Rat
735159Ipcef1interaction protein for cytohesin exchange factors 114323790343451735Rat
7723368Yes1-ps1YES proto-oncogene 1, Src family tyrosine kinase14336702943372347Rat
1595505Lims1-ps1LIM zinc finger domain containing 1, pseudogene 114343510143436082Rat
1307544Cnksr3Cnksr family member 314349927343591630Rat
41130940LOC120099109uncharacterized LOC12009910914352558343527559Rat
1560234Rsrc1-ps3arginine and serine rich coiled-coil 1, pseudogene 314364087643641971Rat
41247671Rnu6-859RNA, U6 small nuclear 85914369158143691678Rat
41127918LOC120097709uncharacterized LOC12009770914370756243712250Rat
708362Scaf8SR-related CTD-associated factor 814372768643855889Rat
2324148Tiam2TIAM Rac1 associated GEF 214391817944119499Rat
727795Tfb1mtranscription factor B1, mitochondrial14411524044161737Rat
1595446Cldn20claudin 2014413376944134428Rat
7558063Tmem127-ps1transmembrane protein 127, pseudogene 114413524944138115Rat
1303190Nox3NADPH oxidase 314423801244302851Rat
41393107LOC120099111uncharacterized LOC12009911114427801944357752Rat
11423353LOC108349518uncharacterized LOC10834951814447439944522719Rat
40952154LOC120097710uncharacterized LOC12009771014459645644608059Rat
2324102Mrpl46-ps1mitochondrial ribosomal protein L46, pseudogene 114484687344856699Rat
41152311LOC120099112uncharacterized LOC12009911214501622045033505Rat

1 to 20 of 1751 rows
1 to 20 of 1554 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
10613D1Arb103931108698333108698726Ratregion
10646D1Wox3011517880456978804684Ratregion
10839D1Wox1812019464443594644553Ratregion
11047D2Mit1320915679441956794475Ratregion
11144D1Wox1114716583292965833076Ratregion
11145D1Arb3130216583290165833203Ratregion
33872D1Mit3321516474374564743958Ratregion
33872D1Mit3321516487235364872485Ratregion
33931D1Mit108515683509656835181Ratregion
1 to 20 of 1554 rows

Flank 1: (D1Rat136)
Rat AssemblyChrPosition (strand)Source
mRatBN7.2143,284,731 - 43,284,926 (+)MAPPER
Rnor_6.0143,579,208 - 43,579,402NCBI
Rnor_5.0144,907,605 - 44,907,799UniSTS
RGSC_v3.4137,646,940 - 37,647,484RGD
RGSC_v3.4137,647,211 - 37,647,405UniSTS
RGSC_v3.1137,649,885 - 37,650,429RGD
Celera138,929,086 - 38,929,280UniSTS
RH 3.4 Map1469.71UniSTS
RH 3.4 Map1469.71RGD
SHRSP x BN Map120.49UniSTS
SHRSP x BN Map120.49RGD
Cytogenetic Map1p11UniSTS
Flank 2: (D1Mgh1)
Rat AssemblyChrPosition (strand)Source
mRatBN7.21118,944,747 - 118,944,897 (+)MAPPER
Rnor_6.01126,240,518 - 126,240,667NCBI
Rnor_6.01124,090,312 - 124,090,461NCBI
Rnor_5.01125,208,389 - 125,208,538UniSTS
Rnor_5.01127,336,271 - 127,336,420UniSTS
RGSC_v3.41119,780,411 - 119,780,561RGD
RGSC_v3.41119,780,412 - 119,780,561UniSTS
RGSC_v3.11119,858,755 - 119,858,904RGD
Celera1111,165,315 - 111,165,464UniSTS
RH 3.4 Map11469.19RGD
RH 3.4 Map11469.19UniSTS


1 to 10 of 112 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
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
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat
1302788Scl19Serum cholesterol QTL 194.60.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)190532338123479925Rat
631569Bp93Blood pressure QTL 930.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1106047847121834139Rat
1578756Iddm22Insulin dependent diabetes mellitus QTL 222.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)11183518156835181Rat
4889962Bss94Bone structure and strength QTL 943.8tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)14936146582174945Rat
724521Uae1Urinary albumin excretion QTL 13.80.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)190508614173018436Rat

1 to 10 of 112 rows


Note Type Note Reference
qtl_cross_type intercross  
qtl_general lineage: 2 seperate F2 intercrosses were generated one from grandmaternal GK and grandpaternal F344 other from grandmaternal F344 and grandpaternal GK 2312767
qtl_general software used:one-way ANOVA and MAP MANAGER/QTX 2312767
qtl_general measurement method: in the last 3 months modified fat-enriched chow was given; animals were killed at 215 days of age body length and weight recorded; left tibia cleaned at stored in 70% alcohol for pQCT (peripheral quantitative computed tomography) 2312767
qtl_general number of animals used: 108 males 2312767
qtl_general locus influences the size of the animal 2312767