Bss14 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Bss14 (Bone structure and strength QTL 14) Rattus norvegicus

Symbol: Bss14
Name: Bone structure and strength QTL 14
RGD ID: 1578670
Trait: femur morphology trait   (VT:0000559)    
Measurement Type: bone trabecular cross-sectional area   (CMO:0002311)    
LOD Score: 16.4
P Value: Not Available
Variance: Not Available
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8488,883,695 - 133,883,695RGD_MAPPER_PIPELINE
mRatBN7.2487,327,165 - 132,327,165RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.0487,136,446 - 132,136,446RGD_MAPPER_PIPELINERnor6.0
Rnor_5.04151,627,684 - 196,627,684RGDRnor5.0
RGSC_v3.4489,539,438 - 134,539,438RGDRGSC3.4
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)
Bss14Ratosteoporosis  IAGP 1578307 RGD 

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss14Ratabnormal bone structure  IAGP 1578307 RGD 

Clinical Measurement
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss14Ratbone trabecular cross-sectional area  IDA 1578307 RGD 

Experimental Condition
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss14Ratcontrol condition  IDA 1578307 RGD 

Measurement Method
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss14Ratex vivo peripheral quantitative computed tomography  IDA 1578307 RGD 

Rat Strain
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss14RatF344/NHsd  IEA 1578307 RGD 
Bss14RatLEW/NHsd  IEA 1578307 RGD 

Vertebrate Trait
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bss14Ratfemur morphology trait  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. Genomic expression analysis of rat chromosome 4 for skeletal traits at femoral neck. Alam I, etal., Physiol Genomics. 2008 Aug 26.


1 to 20 of 559 rows
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD ID
Symbol
Name
Chr
Start
Stop
Species
1549699Vom1r88vomeronasal 1 receptor 8848734693387347826Rat
1306494Vopp1VOPP1 WW domain binding protein48736367887432747Rat
1310809Lancl2LanC like glutathione S-transferase 248744182187483707Rat
1565524PyurfPIGY upstream open reading frame48750185987505494Rat
1561739Herc6HECT and RLD domain containing E3 ubiquitin protein ligase family member 648752447087566895Rat
1563162Rps7-ps20ribosomal protein S7, pseudogene 2048759277387602036Rat
1308501Ppm1kprotein phosphatase, Mg2+/Mn2+ dependent, 1K48761219887638993Rat
631345Abcg2ATP binding cassette subfamily G member 248767624187802757Rat
41258840U6l8U6 spliceosomal RNA like 848784604487846150Rat
1587249Ppid-ps16peptidylprolyl isomerase D, pseudogene 1648785508187856880Rat
41250383LOC120102287uncharacterized LOC12010228748794191487952110Rat
1307803Herc3HECT and RLD domain containing E3 ubiquitin protein ligase 348795220288042492Rat
1584123Nap1l5nucleosome assembly protein 1-like 548802267088024988Rat
1309807Fam13afamily with sequence similarity 13, member A48805652188155782Rat
41392412LOC120102697small nucleolar RNA SNORA1748824063988240769Rat
1593482Acbd5-ps1acyl-CoA binding domain containing 5, pseudogene 148826755188268264Rat
1559612Tigd2tigger transposable element derived 248841436688417458Rat
2322105Senp6-ps1SUMO specific peptidase 6, pseudogene 148855134588555553Rat
1565690Gprin3GPRIN family member 348857206288657369Rat
11451272LOC108350862uncharacterized LOC10835086248876271388780061Rat

1 to 20 of 559 rows
1 to 20 of 639 rows
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Expected Size
Chr
Start
Stop
Species
Match
10156D4Mit181934131730729131730924Ratregion
10157D4Wox171574131730755131730914Ratregion
10158D4Arb162514131730738131730991Ratregion
10513D4Arb63064118050728118051034Ratregion
10525D4Mit311244108086268108086390Ratregion
10560D4Mit121794103194805103194984Ratregion
10561D4Wox201444103194798103194942Ratregion
10562D4Arb212804103194656103194936Ratregion
10782D4Mit81044102684777102684881Ratregion
11229D4Wox281374110891355110891492Ratregion
33905D4Mit1127449136052791360801Ratregion
33933D4Mit161104128289450128289560Ratregion
33991D4Mit282204110275411110275633Ratregion
34023D4Mit291144117809401117809515Ratregion
34256D4Mgh181244126395976126396065Ratregion
11381D4Mgh171374114921280114921417Ratregion
11383D4Mit231204114921294114921414Ratregion
11409D4Wox181134118699850118699963Ratregion
11410D4Arb52474118699819118700066Ratregion
33696D4Mit152314113634394113634625Ratregion
1 to 20 of 639 rows

Flank 1: (D4Rat123)
Rat AssemblyChrPosition (strand)Source
RGSC_v3.12156,206,225 - 156,206,546RGD
SHRSP x BN Map498.8099UniSTS
SHRSP x BN Map498.8099RGD
Flank 2: (D4Rat57)
Rat AssemblyChrPosition (strand)Source
GRCr84133,883,514 - 133,883,695 (+)Marker Load Pipeline
mRatBN7.24132,326,984 - 132,327,165 (+)MAPPER
Rnor_6.04132,136,266 - 132,136,446NCBI
Rnor_5.04196,627,504 - 196,627,684UniSTS
RGSC_v3.44134,539,257 - 134,539,438RGD
RGSC_v3.44134,539,258 - 134,539,438UniSTS
RGSC_v3.14134,784,056 - 134,784,344RGD
Celera4121,186,241 - 121,186,421UniSTS
RH 2.0 Map4859.1RGD
SHRSP x BN Map457.7499RGD
FHH x ACI Map476.9499RGD
Cytogenetic Map4q34UniSTS


1 to 10 of 89 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
1582232Gluco25Glucose level QTL 253.60.0023blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)485253748148090731Rat
631689Scl4Serum cholesterol level QTL 41.90.008blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)495174120140174120Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)438465774146803430Rat
1549843Bw53Body weight QTL 530.0001body mass (VT:0001259)body weight gain (CMO:0000420)461697658103194791Rat
6893678Bw108Body weight QTL 1082.60.006body mass (VT:0001259)body weight (CMO:0000012)44345797688457976Rat
1578655Bmd11Bone mineral density QTL 1111femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)490850165135850165Rat
1300116Hrtrt5Heart rate QTL 53.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)4116179486151161268Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)426775591168368347Rat
1357342Bw40Body weight QTL 400.001body mass (VT:0001259)body weight (CMO:0000012)476647384117676292Rat
631683Bp116Blood pressure QTL 1160.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4124303370169303370Rat

1 to 10 of 89 rows


Note Type Note Reference
qtl_gene 18 candidate genes were found to be strongly correlated to femoral neck width by microarray analysis 2300256