Bmd6 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Bmd6 (Bone mineral density QTL 6) Rattus norvegicus

Symbol: Bmd6
Name: Bone mineral density QTL 6
RGD ID: 1578650
Trait: femur mineral mass   (VT:0010011)    
Measurement Type: total volumetric bone mineral density   (CMO:0001728)    
LOD Score: 12.2
P Value: Not Available
Variance: Not Available
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21509,108 - 43,284,926RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.01254,393 - 43,579,402RGD_MAPPER_PIPELINERnor6.0
Rnor_5.01249,747 - 44,907,799RGDRnor5.0
RGSC_v3.41390,736 - 37,647,484RGDRGSC3.4
RGSC_v3.11574,288 - 37,650,429RGD
Cross Type: Not Available
Strains Crossed: F344/NHsd LEW/NHsd 




  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd6Ratosteoporosis  IAGP 1578307 RGD 

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd6Ratincreased bone mineral density  IAGP 1578307 RGD 

Clinical Measurement
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd6Rattotal volumetric bone mineral density  IDA 1578307femoral neck total volumetric bone mineral densityRGD 

Experimental Condition
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd6Ratcontrol condition  IDA 1578307 RGD 

Measurement Method
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd6Ratex vivo peripheral quantitative computed tomography  IDA 1578307 RGD 

Rat Strain
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd6RatF344/NHsd  IEA 1578307 RGD 
Bmd6RatLEW/NHsd  IEA 1578307 RGD 

Vertebrate Trait
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd6Ratfemur 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;.


1 to 20 of 476 rows
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD ID
Symbol
Name
Chr
Start
Stop
Species
41118361Znf729l-ps2zinc finger protein 729 like, pseudogene 21510377514465Rat
9213653LOC103690914zinc finger protein 431-like1548530567649Rat
40952346Zfp748-ps3zinc finger protein 748, pseudogene 31610091616811Rat
7732163Zfp1007l2zinc finger protein 1007 like 21650108668745Rat
1626064Vom2r-ps5vomeronasal 2 receptor, pseudogene 51689460698286Rat
1626065Vom2r-ps4vomeronasal 2 receptor, pseudogene 41726137734841Rat
1596944Vom2r1vomeronasal 2 receptor, 11775164785885Rat
7716527Zfp950l14zinc finger protein 950 like 141826916848646Rat
6498842LOC100910337uncharacterized LOC1009103371849528859535Rat
11388887Vmn2r116l-ps2vomeronasal 2, receptor 116 like, pseudogene 21891011899642Rat
1626047Vom2r-ps3vomeronasal 2 receptor, pseudogene 31960454969032Rat
6500225Vom2r4l1vomeronasal 2 receptor, 4 like 119960941004974Rat
1597153Vom2r-ps112vomeronasal 2 receptor, pseudogene 112110688611077685Rat
1585898Vom2r5vomeronasal 2 receptor, 5111619061170559Rat
1562697Vom2r6vomeronasal 2 receptor, 6112140351222755Rat
2321523Atp13a3-ps1ATPase 13A3, pseudogene 1112314781238507Rat
1597854Vmn2r116l-ps35vomeronasal 2, receptor 116 like, pseudogene 35112467471266788Rat
41302795Vmn2r116l-ps21vomeronasal 2, receptor 116 like, pseudogene 21112854761297503Rat
41290361LOC120100385small nucleolar RNA SNORA32113164631316584Rat
40950379LOC120100082retinoic acid early-inducible protein 1-gamma-like113353181337400Rat

1 to 20 of 476 rows
1 to 20 of 570 rows
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Expected Size
Chr
Start
Stop
Species
Match
34449D1Mgh17136186064968606632Ratregion
34662D1Mgh215012234064722340797Ratregion
36137D1Rat516211043533910435501Ratregion
36199D1Rat112911024655010246679Ratregion
36303D1Rat626511933357119333836Ratregion
37296D1Rat14821111576058215760793Ratregion
37364D1Rat15024311524559815245841Ratregion
37598D1Rat17618513273727332737458Ratregion
35242D1Rat1117514026042240260599Ratregion
35467D1Rat717311543162115431794Ratregion
37198D1Rat18622511532110015321325Ratregion
37610D1Rat167229141628074163036Ratregion
37658D1Rat247216162366426236858Ratregion
37974D1Rat21124113105084031051081Ratregion
36550D1Rat1215413349198733492143Ratregion
36568D1Rat417011148131211481482Ratregion
36590D1Rat16015312845987428460027Ratregion
36640D1Rat1418313235591032356093Ratregion
36651D1Rat1614814223682142236969Ratregion
34878D1Rat313611172494211725077Ratregion
1 to 20 of 570 rows

Flank 1: (D1Rat245)
Rat AssemblyChrPosition (strand)Source
mRatBN7.21655,210 - 655,424 (+)MAPPER
mRatBN7.21509,108 - 509,280 (-)MAPPER
Rnor_6.01256,244 - 256,458NCBI
Rnor_6.01254,393 - 254,564NCBI
Rnor_5.01251,323 - 251,537UniSTS
Rnor_5.01249,747 - 249,918UniSTS
RGSC_v3.41390,854 - 391,067UniSTS
RGSC_v3.41390,736 - 391,195RGD
RGSC_v3.41574,288 - 574,459UniSTS
RGSC_v3.11574,288 - 574,459RGD
RH 3.4 Map10.0RGD
RH 3.4 Map10.0UniSTS
SHRSP x BN Map10.0RGD
SHRSP x BN Map10.0UniSTS
Flank 2: (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


1 to 10 of 59 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
1578650Bmd6Bone mineral density QTL 612.2femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)150910843284926Rat
1354647Despr8Despair related QTL 80.0000341locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1124744506Rat
1578651Bmd7Bone mineral density QTL 714.2femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)150910843284926Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)130882023123479925Rat
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
2298546Neuinf4Neuroinflammation QTL 45.1nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1128736750Rat
2317755Glom22Glomerulus QTL 223.8urine protein amount (VT:0005160)urine protein level (CMO:0000591)11148148232355910Rat

1 to 10 of 59 rows


Note Type Note Reference