Bmd13 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Bmd13 (Bone mineral density QTL 13) Rattus norvegicus

Symbol: Bmd13
Name: Bone mineral density QTL 13
RGD ID: 1578673
Trait: femur mineral mass   (VT:0010011)    
Measurement Type: trabecular volumetric bone mineral density   (CMO:0001729)    
LOD Score: 4.9
P Value: Not Available
Variance: Not Available
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8569,474,415 - 114,474,415RGD_MAPPER_PIPELINE
mRatBN7.25103,689,353 - 148,689,353RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.05107,119,214 - 152,119,214RGD_MAPPER_PIPELINERnor6.0
Rnor_5.05111,095,780 - 156,095,780RGDRnor5.0
RGSC_v3.45108,589,975 - 153,589,975RGDRGSC3.4
RGSC_v3.15108,595,522 - 153,595,522RGD
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)
Bmd13Ratosteoporosis  IAGP 1578307 RGD 

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd13Ratincreased bone mineral density  IAGP 1578307 RGD 

Clinical Measurement
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd13Rattrabecular volumetric bone mineral density  IDA 1578307 RGD 

Experimental Condition
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd13Ratcontrol condition  IDA 1578307 RGD 

Measurement Method
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd13Ratex vivo peripheral quantitative computed tomography  IDA 1578307 RGD 

Rat Strain
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd13RatF344/NHsd  IEA 1578307 RGD 
Bmd13RatLEW/NHsd  IEA 1578307 RGD 

Vertebrate Trait
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bmd13Ratfemur 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 841 rows
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD ID
Symbol
Name
Chr
Start
Stop
Species
11413299LOC108350998uncharacterized LOC1083509985103757997103779881Rat
2318341C5h9orf85similar to human chromosome 9 open reading frame 855103767094103767986Rat
1310114Mtapmethylthioadenosine phosphorylase5103874460103920684Rat
41034517Gskip-ps1GSK3B interacting protein, pseudogene 15103941903103943310Rat
2323Cdkn2acyclin-dependent kinase inhibitor 2A5103984949103992143Rat
2324Cdkn2bcyclin-dependent kinase inhibitor 2B5104009839104019082Rat
7697358LOC102552523uncharacterized LOC1025525235104019105104127037Rat
1588220Hspd1-ps14heat shock protein family D (Hsp60) member 1, pseudogene 145104129384104131678Rat
41260363LOC120102910uncharacterized LOC1201029105104171383104185974Rat
9404082LOC103692411uncharacterized LOC1036924115104410856104415793Rat
1309796Dmrta1DMRT-like family A15104415893104422433Rat
1584925Lmntd1-ps1lamin tail domain containing 1, pseudogene 15104595779104597302Rat
1560729Rps24-ps18ribosomal protein S24, pseudogene 185104729321104730083Rat
1563227Zfp352zinc finger protein 3525104946243104948087Rat
1310095Zfp353zinc finger protein 3535105075075105076667Rat
1583722Eef1g-ps13eukaryotic translation elongation factor 1 gamma, pseudogene 135105085925105111382Rat
1585888Vdac1-ps2voltage-dependent anion channel 1, pseudogene 25105313273105321698Rat
41388855Rnu6-698RNA, U6 small nuclear 6985105346075105346181Rat
6498356Ktn1-ps1kinectin 1, pseudogene 15105565480105575498Rat
41255483Ppia-ps8peptidylprolyl isomerase A, pseudogene 85105600882105603060Rat

1 to 20 of 841 rows
1 to 20 of 1177 rows
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Expected Size
Chr
Start
Stop
Species
Match
10262D5Rhm31335119564714119564847Ratregion
10263D5Rhm41455119592239119592384Ratregion
10321D5Lev171235103991975103992098Ratregion
10324D5Lev191835124411616124411799Ratregion
10453D5Mcw15128924597128924722Ratregion
10453D5Mcw15129098900129099033Ratregion
10454D5Wox121185128924607128924723Ratregion
10454D5Wox121185129098910129099034Ratregion
10455D5Wox21145147939831147939945Ratregion
10490D5Uwm51715147340163147340334Ratregion
10491D5Wox142255147340196147340421Ratregion
10826D5Mgh231285109897808109897936Ratregion
10827D5Lev152925109894810109895102Ratregion
10860D5Wox151195141899404141899523Ratregion
11090D5Rhm21685114659557114659726Ratregion
33804D5Mit62125117817033117817245Ratregion
34041D5Mit51445104250862104251008Ratregion
34136D5Mgh212185144377876144378094Ratregion
34210D5Mgh141505143608201143608494Ratregion
34210D5Mgh141505143608344143608494Ratregion
1 to 20 of 1177 rows

Flank 1: (D5Rat153)
Rat AssemblyChrPosition (strand)Source
mRatBN7.25103,689,353 - 103,689,768 (-)MAPPER
mRatBN7.25103,689,997 - 103,690,167 (-)MAPPER
mRatBN7.25103,689,674 - 103,690,167 (-)MAPPER
Rnor_6.05107,119,214 - 107,119,704NCBI
Rnor_6.05107,119,214 - 107,119,383NCBI
Rnor_5.05111,095,780 - 111,096,270UniSTS
Rnor_5.05111,095,780 - 111,095,949UniSTS
RGSC_v3.45108,590,296 - 108,590,465UniSTS
RGSC_v3.45108,589,975 - 108,590,465UniSTS
RGSC_v3.45108,590,295 - 108,590,465RGD
RGSC_v3.15108,595,522 - 108,595,691RGD
Celera5102,415,516 - 102,416,037UniSTS
Celera5102,415,837 - 102,416,037UniSTS
RH 3.4 Map5744.7UniSTS
RH 3.4 Map5744.7RGD
SHRSP x BN Map558.2299UniSTS
SHRSP x BN Map558.2299RGD
Cytogenetic Map5q32UniSTS
Flank 2: (D5Rat154)
Rat AssemblyChrPosition (strand)Source
GRCr85114,474,223 - 114,474,415 (+)Marker Load Pipeline
RH 3.4 Map5777.8RGD
RH 3.4 Map5777.8UniSTS
RH 2.0 Map5704.6RGD
SHRSP x BN Map559.2999RGD


1 to 10 of 88 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
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5111416838156416838Rat
2302369Scl60Serum cholesterol level QTL 603.13blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)5143608201161165651Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat
1300119Bp180Blood pressure QTL 1803.82arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5144358090157869054Rat
1298070Scl18Serum cholesterol level QTL 183.7blood LDL cholesterol amount (VT:0000181)calculated plasma low density lipoprotein cholesterol level (CMO:0001245)579584860124584860Rat
1300122Wbc1White blood cell count QTL 12.75leukocyte quantity (VT:0000217)total white blood cell count (CMO:0000365)5125392826139989768Rat
61452Ciaa5CIA Autoantibody QTL 53.5blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)594858972143070159Rat
70156Niddm30Non-insulin dependent diabetes mellitus QTL 303.98blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)5129132447151006154Rat

1 to 10 of 88 rows


Note Type Note Reference