Bss63 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Bss63 (Bone structure and strength QTL 63) Rattus norvegicus

Symbol: Bss63
Name: Bone structure and strength QTL 63
RGD ID: 2313066
Previously known as: Pqctm5
Trait: tibia strength trait   (VT:1000284)    
Measurement Type: bone polar moment of inertia   (CMO:0001558)    
LOD Score: 1.4
P Value: 1.0E-4
Variance: Not Available
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8105,893,811 - 50,893,811RGD_MAPPER_PIPELINE
mRatBN7.2105,387,014 - 50,387,014RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.0105,460,119 - 21,524,070RGD_MAPPER_PIPELINERnor6.0
Rnor_5.0104,281,142 - 21,392,459RGDRnor5.0
RGSC_v3.4105,339,759 - 21,607,865RGDRGSC3.4
Cross Type: intercross
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)
Bss63Ratosteoporosis  IAGP 2312767 RGD 

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss63Ratdecreased bone mass  IDA 2312767 RGD 
Bss63Ratdecreased bone strength  IDA 2312767 RGD 

Clinical Measurement
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss63Ratbone polar moment of inertia  IDA 2312767update to tibia specific termRGD 

Experimental Condition
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss63Ratcontrolled bile acid content diet  IDA 23127670.5%RGD 
Bss63Ratcontrolled cholesterol content diet  IDA 23127672%RGD 
Bss63Ratcontrolled olive oil content diet  IDA 231276720%RGD 

Measurement Method
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss63Ratex vivo peripheral quantitative computed tomography  IDA 2312767 RGD 

Rat Strain
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss63RatF344/DuCrlSwe  IEA 2312767 RGD 
Bss63RatGK/KyoSwe  IEA 2312767 RGD 

Vertebrate Trait
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss63Rattibia strength trait  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
Bss61 maps to same region RGD:2312767
Bss62 maps to same region RGD:2312767
Bss64 maps to same region RGD:2312767
Bmd71 maps to same region RGD:2312767



1 to 20 of 950 rows
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD ID
Symbol
Name
Chr
Start
Stop
Species
1359629Emp2epithelial membrane protein 21053600735394734Rat
1583744Atf7ip2activating transcription factor 7 interacting protein 21054030995445989Rat
1561345Rpl39l1ribosomal protein L39 like 11054557125459828Rat
11377177LOC108352053uncharacterized LOC1083520531055951485597118Rat
2737Grin2aglutamate ionotropic receptor NMDA type subunit 2A1056296836053262Rat
41294128LOC120095022uncharacterized LOC1200950221057497235754581Rat
1583743LOC497861similar to 60S ribosomal protein L23a1062439726249916Rat
7607054LOC102554563uncharacterized LOC1025545631063773766389405Rat
11378146LOC10835205560S ribosomal protein L7 pseudogene1065647066565810Rat
11458070LOC108352212uncharacterized LOC1083522121067134056714467Rat
9117786LOC103693272uncharacterized LOC1036932721067204026726491Rat
1309748Hapstr1HUWE1 associated protein modifying stress responses1067460376774992Rat
7653599LOC102546403uncharacterized LOC1025464031067935136798116Rat
11467871LOC108352056cytochrome c oxidase subunit 6B1 pseudogene1068761746876517Rat
1306915Usp7ubiquitin specific peptidase 71068806846925355Rat
1564086LitafdLITAF domain containing1069317196935869Rat
708415Carhsp1calcium regulated heat stable protein 11069460366960556Rat
1309366Pmm2phosphomannomutase 21069615216982913Rat
1561167Tmem186transmembrane protein 1861069829386986256Rat
620948Abat4-aminobutyrate aminotransferase1069966887092835Rat

1 to 20 of 950 rows
1 to 20 of 1109 rows
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Expected Size
Chr
Start
Stop
Species
Match
10792D10Wox10850103840624038407090Ratregion
10794D10Mgh9130103777589037776020Ratregion
10795D10Wox9188103777583737776025Ratregion
10874D10Rat83173104539382945394002Ratregion
33909D10Mit4188103539226735392457Ratregion
34053D10Mit3148104003509440035242Ratregion
34084D10Mgh18206101792601517926223Ratregion
34359D10Mgh11134102929950429299638Ratregion
34677D10Mgh19108103063149230631600Ratregion
33565D10Mit9238103122402631224268Ratregion
33585D10Mit6190101448701114487201Ratregion
33591D10Mit141001053870145387112Ratregion
33630D10Mit17163101272586612726029Ratregion
33632D10Mit10198102652195726522155Ratregion
33666D10Mit1691101960648319606574Ratregion
35571D10Rat35147103167468831674835Ratregion
36067D10Rat38174103096480030964974Ratregion
36249D10Rat45123101981591919816042Ratregion
36335D10Mit18188102519199425192182Ratregion
37454D10Rat82192103222339032223584Ratregion
1 to 20 of 1109 rows

Flank 1: (D10Mit14)
Rat AssemblyChrPosition (strand)Source
GRCr8105,893,811 - 5,893,911 (+)Marker Load Pipeline
mRatBN7.2105,387,014 - 5,387,112 (+)MAPPER
Rnor_6.0105,460,119 - 5,460,218NCBI
Rnor_5.0104,281,142 - 4,281,241UniSTS
RGSC_v3.4105,339,759 - 5,339,859RGD
RGSC_v3.4105,339,760 - 5,339,859UniSTS
RGSC_v3.1105,339,760 - 5,339,859RGD
Celera104,402,915 - 4,403,014UniSTS
RH 3.4 Map1068.5RGD
RH 3.4 Map1068.5UniSTS
RH 2.0 Map100.0RGD
Cytogenetic Map10q11UniSTS
Flank 2: (D10Mit5)
Rat AssemblyChrPosition (strand)Source
Rnor_6.01021,523,906 - 21,524,070NCBI
Rnor_5.01021,392,295 - 21,392,459UniSTS
RGSC_v3.41021,607,719 - 21,607,865RGD
RGSC_v3.41021,607,720 - 21,607,865UniSTS
RGSC_v3.11021,608,769 - 21,608,914RGD
RH 3.4 Map10240.41UniSTS
RH 3.4 Map10240.41RGD
RH 2.0 Map10246.1RGD
Cytogenetic Map10q12UniSTS


1 to 10 of 91 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
61441Btemp1Thermal response to stress QTL 14body temperature trait (VT:0005535)core body temperature (CMO:0001036)103539245763642539Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
152025229Scl83Serum cholesterol level QTL 834.33blood cholesterol amount (VT:0000180)103571058068663659Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103129743976297439Rat
152025227Bw195Body weight QTL 1955.73body mass (VT:0001259)104698969968663659Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101527595560275955Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
2293669Bmd33Bone mineral density QTL 334.50.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)104944455181709989Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)104114263386142633Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat

1 to 10 of 91 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 number of animals used: 108 males 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; biomechanical strength of the bone was estimated from cortical diaphyseal data 2312767