Bmd15 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Bmd15 (Bone mineral density QTL 15) Rattus norvegicus

Symbol: Bmd15
Name: Bone mineral density QTL 15
RGD ID: 1578652
Trait: femur mineral mass   (VT:0010011)    
Measurement Type: trabecular volumetric bone mineral density   (CMO:0001729)    
LOD Score: 5.2
P Value: Not Available
Variance: Not Available
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8710,517,086 - 62,346,019RGD_MAPPER_PIPELINE
mRatBN7.279,866,467 - 60,460,686RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.0712,687,850 - 67,801,690RGD_MAPPER_PIPELINERnor6.0
Rnor_5.0712,857,572 - 67,991,627RGDRnor5.0
RGSC_v3.4711,379,354 - 64,612,198RGDRGSC3.4
RGSC_v3.1711,379,355 - 64,632,925RGD
Cross Type: Not Available
Strains Crossed: F344/NHsd LEW/NHsd 
JBrowse: View Region in Genome Browser (JBrowse)
Model




  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd15Ratosteoporosis  IAGP 1578307 RGD 

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd15Ratincreased bone mineral density  IAGP 1578307 RGD 

Clinical Measurement
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd15Rattrabecular volumetric bone mineral density  IDA 1578307femoral neck trabecular volumetric bone mineral densityRGD 

Experimental Condition
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd15Ratcontrol condition  IDA 1578307 RGD 

Measurement Method
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd15Ratex vivo peripheral quantitative computed tomography  IDA 1578307 RGD 

Rat Strain
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd15RatF344/NHsd  IEA 1578307 RGD 
Bmd15RatLEW/NHsd  IEA 1578307 RGD 

Vertebrate Trait
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd15Ratfemur mineral mass  IDA 1578307 RGD 


#
Reference Title
Reference Citation
1. Identification of a quantitative trait locus on rat chromosome 4 that is strongly linked to femoral neck structure and strength. Alam I, etal., Bone. 2006 Feb 2;.
2. Epistatic effects contribute to variation in BMD in Fischer 344 x Lewis F2 rats. Koller DL, etal., J Bone Miner Res. 2008 Jan;23(1):41-7.

Related QTL Description Reference
Bmd1 interacts with RGD:2293187



1 to 20 of 644 rows
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD ID
Symbol
Name
Chr
Start
Stop
Species
1595680Mispmitotic spindle positioning798703909886541Rat
620341Palmparalemmin798866349912389Rat
1303330Prss57serine protease 57799156679922996Rat
621811Fstl3follistatin like 3799235749929223Rat
1306011Rnf126ring finger protein 126799393599946963Rat
620177Fgf22fibroblast growth factor 22799476329956918Rat
1304599PolrmtRNA polymerase mitochondrial799595329969791Rat
620689Hcn2hyperpolarization activated cyclic nucleotide gated potassium and sodium channel 2799698019988839Rat
2220Bsgbasigin7999317010000387Rat
620022Gzmmgranzyme M71001106510016841Rat
1305411Cdc34cell division cycle 34, ubiquitin conjugating enzyme71001758810023586Rat
1588613Tpgs1tubulin polyglutamylase complex subunit 171002984210035764Rat
3029Madcam1mucosal vascular addressin cell adhesion molecule 171003630110039703Rat
1310260Cimap1dCIMAP1 family member D71004947210065626Rat
1307137Shc2SHC adaptor protein 271006670510088926Rat
1561354C2cd4cC2 calcium-dependent domain containing 4C71009065110095426Rat
1309240Spmap2sperm microtubule associated protein 271012739410137556Rat
1307278Mier2MIER family member 271015350110169381Rat
628893Plpp2phospholipid phosphatase 271017591810184032Rat
40943365LOC120093534uncharacterized LOC12009353471020566810209303Rat

1 to 20 of 644 rows
1 to 20 of 772 rows
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Expected Size
Chr
Start
Stop
Species
Match
10221D7Arb1722675811322458113450Ratregion
10764D7Mit2319772228208722282284Ratregion
10880D7Mgh2212475288832652888450Ratregion
33915D14Mit1424671602213316022370Ratregion
33915D14Mit1424671711623617116475Ratregion
34051D7Mit2823272673740126737633Ratregion
34055D7Mit2214273320007033200212Ratregion
34078D7Mgh1414972250569522505844Ratregion
34166D7Mgh1513871903280719032945Ratregion
34634D4Mgh538375811434658114729Ratregion
33664D7Mit726873131025731310525Ratregion
33721D7Mit179571150021211500307Ratregion
36099D7Rat2514475679321056793354Ratregion
36141D7Rat4916072226618522266345Ratregion
36263D7Rat2916673085810830858274Ratregion
36317D7Rat16617475922594759226115Ratregion
37236D7Rat5111674725178347251899Ratregion
37256D7Rat10614774391053643910683Ratregion
37258D7Rat10723274442107944421311Ratregion
37262D7Rat64157798664679866624Ratregion
1 to 20 of 772 rows

Flank 1: (D7Rat64)
Rat AssemblyChrPosition (strand)Source
GRCr8710,517,086 - 10,517,243 (+)Marker Load Pipeline
mRatBN7.279,866,467 - 9,866,624 (+)MAPPER
Rnor_6.0712,687,850 - 12,688,006NCBI
Rnor_5.0712,857,572 - 12,857,728UniSTS
RGSC_v3.4711,379,354 - 11,379,511RGD
RGSC_v3.4711,379,355 - 11,379,511UniSTS
RGSC_v3.1711,379,355 - 11,379,511RGD
Celera78,041,153 - 8,041,297UniSTS
RH 3.4 Map744.9UniSTS
RH 3.4 Map744.9RGD
RH 2.0 Map70.0RGD
SHRSP x BN Map74.58RGD
Cytogenetic Map7q11UniSTS
Flank 2: (D7Rat69)
Rat AssemblyChrPosition (strand)Source
GRCr8762,345,785 - 62,346,019 (+)Marker Load Pipeline
mRatBN7.2760,460,452 - 60,460,686 (+)MAPPER
Rnor_6.0767,801,457 - 67,801,690NCBI
Rnor_5.0767,991,394 - 67,991,627UniSTS
RGSC_v3.4764,611,965 - 64,612,198UniSTS
RGSC_v3.4764,611,964 - 64,612,195RGD
RGSC_v3.1764,632,694 - 64,632,925RGD
Celera757,618,356 - 57,618,589UniSTS
SHRSP x BN Map736.68UniSTS
SHRSP x BN Map736.68RGD
FHH x ACI Map733.46RGD


1 to 10 of 62 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
1354644Spl4Serum phospholipid level QTL 44.9blood phospholipid amount (VT:0006084)blood phospholipid level (CMO:0001169)71965431749753746Rat
7411569Bw137Body weight QTL 1370.001body mass (VT:0001259)body weight gain (CMO:0000420)72192119566921195Rat
2293667Bss42Bone structure and strength QTL 427.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)74765143992651439Rat
1578652Bmd15Bone mineral density QTL 155.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)7986646760460686Rat
1641885Alcrsp9Alcohol response QTL 9alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)72409960669099606Rat
1549840Bss5Bone structure and strength QTL 59.8femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)72475184169751841Rat
1300127Srn1Serum renin concentration QTL 13.87blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)72940968384928080Rat
2293678Bss24Bone structure and strength QTL 246.710.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)74765143992651439Rat
1358361Sradr5Stress Responsive Adrenal Weight QTL 55.55adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)743747012108555253Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)7946224658265113Rat

1 to 10 of 62 rows


Note Type Note Reference