Bss65 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL: Bss65 (Bone structure and strength QTL 65) Rattus norvegicus

Symbol: Bss65
Name: Bone structure and strength QTL 65
RGD ID: 2313080
Previously known as: Pqctm6
Trait: long bone metaphysis morphology trait   (VT:0000133)    
Measurement Type: tibia midshaft total cross-sectional area   (CMO:0001715)    
LOD Score: 3.9
P Value: 1.0E-4
Variance: Not Available
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21560,990,468 - 73,690,657RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.01568,366,508 - 81,255,430RGD_MAPPER_PIPELINERnor6.0
Rnor_5.01571,993,218 - 84,794,402RGDRnor5.0
RGSC_v3.41567,190,176 - 80,362,100RGDRGSC3.4
Cross Type: intercross
Strains Crossed: GK/KyoSwe F344/DuCrlSwe 
JBrowse: View Region in Genome Browser (JBrowse)
Model



Disease Annotations     Click to see Annotation Detail View
osteoporosis  (IAGP)

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
Experimental Data Annotations     Click to see Annotation Detail View

Clinical Measurement

Vertebrate Trait

Rat Strain
F344/DuCrlSwe  (IEA)
GK/KyoSwe  (IEA)

References

References - curated
# 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.

Region

Genes in Region
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD IDSymbolNameChrStartStopSpecies
41315464LOC120097053uncharacterized LOC120097053156138063461394655Rat
40989554LOC120097194U6 spliceosomal RNA156219208462192173Rat
1593287Diaph3diaphanous-related formin 3156254337563013060Rat
41002785Trnav-aac40transfer RNA valine (anticodon AAC) 40156270754162707622Rat
41189376LOC120097230small nucleolar RNA SNORA48156305046163050601Rat
41127910Atp5mj-ps2ATP synthase membrane subunit j, pseudogene 2156320208063202497Rat
2320163Mfap1a-ps2microfibrillar-associated protein 1A, pseudogene 2156327575063276346Rat
1310126Tdrd3tudor domain containing 3156334053163497208Rat
41326155LOC120097228small nucleolar RNA SNORA48156366873363668876Rat
41026458LOC120097310U6 spliceosomal RNA156374503163745137Rat
41096054LOC120093128uncharacterized LOC120093128156393710263941299Rat
6496491Rpsa-ps1ribosomal protein SA, pseudogene 1156394891363949900Rat
41381972Tubal-ps1tubulin, alpha like, pseudogene 1156407140364072451Rat
1592113Pkm-ps18pyruvate kinase M1/2, pseudogene 18156431995864321551Rat
1306297Pcdh20protocadherin 20156442553464431790Rat
2320118Mtfr2-ps1mitochondrial fission regulator 2, pseudogene 1156542691565427910Rat
41365783LOC120097247small nucleolar RNA SNORA17156575091865751049Rat
1592151Phgdh-ps4phosphoglycerate dehydrogenase, pseudogene 4156580583465807366Rat
40959529LOC120097187uncharacterized LOC120097187156649888566520540Rat
41226654LOC120097232small nucleolar RNA SNORA17156651097266511103Rat
7552264LOC102547864uncharacterized LOC102547864156655133366593853Rat
41325790LOC120097252small nucleolar RNA SNORA17156655180666551936Rat
40983884LOC120097054uncharacterized LOC120097054156665172066661831Rat
7554821Envl-ps1MLV-related proviral Env polyprotein-like, pseudogene 1156673717466757250Rat
7651565LOC102546653uncharacterized LOC102546653156686439666876742Rat
41079966LOC120097254small nucleolar RNA SNORA17156728878167288910Rat
2319690Cdk4-ps1cyclin-dependent kinase 4, pseudogene 1156737104667371603Rat
1595677Nono-ps9non-POU domain containing, octamer-binding, pseudogene 9156738764167435806Rat
41018907LOC120097188uncharacterized LOC120097188156747758567491791Rat
1590791Rplp2l2ribosomal protein lateral stalk subunit P2 like 2156763836567638804Rat
40995928LOC120097056uncharacterized LOC120097056156786285767953489Rat
41023740LOC120097057uncharacterized LOC120097057156848083468606048Rat
41287184LOC120097257small nucleolar RNA SNORA17156867010768670234Rat
41204718LOC120097281U2 spliceosomal RNA156877186068772017Rat
1306348Pcdh9protocadherin 9156934010870237531Rat
41027949LOC120097302U1 spliceosomal RNA156946362569463786Rat
41051620LOC120097140uncharacterized LOC120097140156950797869538198Rat
40957543LOC120097141uncharacterized LOC120097141156968199469719442Rat
1595676Vdac1-ps13voltage-dependent anion channel 1, pseudogene 13157047334670479101Rat
41023963Snrk-ps1SNF related kinase, pseudogene 1157078688370789325Rat
41251075LOC120097271small nucleolar RNA SNORA17157083639770836536Rat
11410099LOC108353042uncharacterized LOC108353042157086763970872983Rat
1592146Ngrn-ps3neugrin, neurite outgrowth associated, pseudogene 3157145020371453611Rat
41054013LOC120097265small nucleolar RNA SNORA17157166663371666721Rat
41121265LOC120097225small nucleolar RNA SNORA2/SNORA34 family157176224671762373Rat
1592145Sinhcaf-ps1SIN3-HDAC complex associated factor, pseudogene 1157231631972318425Rat
9417610LOC103693758uncharacterized LOC103693758157231848772385670Rat
1306441Golga6l9golgin A6 family like 9157246415772468708Rat
7607858Afg3l1-ps1AFG3 (ATPase family gene 3)-like 1, pseudogene 1157251057272511658Rat
2321672Akip1-ps1A-kinase interacting protein 1, pseudogene 1157257613772579688Rat
1307452Klhl1kelch-like family member 1157269819173142726Rat
41261712LOC120097292U6 spliceosomal RNA157300867373008779Rat
2321527LOC100360731SNRPN upstream reading frame protein-like157319322273193407Rat
1592111Snrpnl2small nuclear ribonucleoprotein polypeptide N like 2157319364773194285Rat

Markers in Region
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolExpected SizeChrStartStopSpeciesMatch
34222D15Mgh8139157369051873690657Ratregion
36663D15Rat21159156832716568327360Ratregion
39192D15Rat47200156644312766443335Ratregion
39458D15Rat95209156318067563180884Ratregion
42006D15Arb2219156099046860990698Ratregion
41332D15Rat94171156962579369625966Ratregion
40882D15Rat97224157147706771477291Ratregion
41010D15Rat96157156520576265205939Ratregion
41708D15Rat125135156272548662725621Ratregion
44552D9Wox21136156641797866418033Ratregion
45595D18Got3281157126847471270091Ratregion
1631578D15Got231171156646680366466974Ratregion
1631898D15Got228144157237680472376943Ratregion
1627753D15Got212172156794251067942682Ratregion
1628345D15Got233178156373476563734943Ratregion
1628726D15Got209163156669903966699202Ratregion
1629296D15Got210117156644314366443260Ratregion
1629889D15Got22296156409889464098985Ratregion
1640782D15Got243144156251061362510752Ratregion
1641695D15Got247188156205529562055483Ratregion
1635017D15Got225267156259464162594908Ratregion
1635632D15Got21177156954542869545505Ratregion
1637264D15Got208263156638915366389411Ratregion
1634050D15Got213116157196046571960581Ratregion
5038878RH127385200157145368971453882Ratregion
7206534UniSTS:546922999156934024769341246Ratregion
7206748ha24360156538923565389920Ratregion
5039102RH127513215156763852467638739Ratregion
5039102RH127513215156763852467638739Ratregion
5037005AU049892298156862226168622559Ratregion
5035649RH45841138156934041069340548Ratregion
5031670AU047541219156620524666205458Ratregion
5031696AU047454131156734444167344572Ratregion
5029729BE102165149156989884869898997Ratregion
5033015RH137283212156254343062543642Ratregion
5056757RH144562156156442641364426569Ratregion
5058976BE102662172156970588969706061Ratregion
5053325RH142583272156826804168268313Ratregion
5048188RH132759180156344601163446191Ratregion
5042076RH129225212156763852867638740Ratregion
5042076RH129225212156763852867638740Ratregion
5074298RH137936146157021274870212894Ratregion
5074568RH138092198156349629463496492Ratregion
5064352BI302068215156133510161335316Ratregion
5064868BE108656150156442551864425668Ratregion
5082443BE119407152156342617063426322Ratregion
5089143AU048980150157338924573389395Ratregion
5088447AU048574199156876430068764499Ratregion
5085137BQ200206214156356020363560417Ratregion
5090511AU049794215157261218272612397Ratregion
5089027AU048911125157237684172376966Ratregion
5083019BF390670197156991371269913909Ratregion
5503218UniSTS:237232198156254346062543658Ratregion
5504036px-39f10692156719200967192701Ratregion
5504066px-59g3108156430592064306028Ratregion
5506785G45372202156222617862226380Ratregion
5500873D8S18071641157324127173242912Ratregion
Position Markers

Flank 1: (D15Arb2)
Rat AssemblyChrPosition (strand)Source
mRatBN7.21560,990,468 - 60,990,698 (+)MAPPER
Rnor_6.01568,366,508 - 68,366,737NCBI
Rnor_5.01571,993,218 - 71,993,447UniSTS
RGSC_v3.41567,190,176 - 67,190,406RGD
RGSC_v3.41567,190,177 - 67,190,406UniSTS
RGSC_v3.11567,205,956 - 67,206,186RGD
Celera1560,516,903 - 60,517,132UniSTS
SHRSP x BN Map1540.2698UniSTS
SHRSP x BN Map1540.2698RGD
FHH x ACI Map1553.91RGD
Cytogenetic Map15 RGD
Flank 2: (D15Mgh8)
Rat AssemblyChrPosition (strand)Source
mRatBN7.21573,690,518 - 73,690,657 (+)MAPPER
Rnor_6.01581,255,292 - 81,255,430NCBI
Rnor_5.01584,794,264 - 84,794,402UniSTS
RGSC_v3.41580,361,961 - 80,362,100RGD
RGSC_v3.41580,361,962 - 80,362,100UniSTS
RGSC_v3.11580,377,742 - 80,377,880RGD
Celera1572,959,866 - 72,960,004UniSTS
RH 3.4 MapX349.81UniSTS
RH 3.4 MapX349.81RGD
RH 2.0 Map21234.4RGD
SHRSP x BN Map1543.6598RGD
FHH x ACI Map1559.21RGD
Cytogenetic Map15 RGD


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152211793367117933Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)152803066582262678Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)152803066582262678Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)152803066582262678Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
2293691Bmd37Bone mineral density QTL 376.60.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)153361105871477291Rat
2293686Bmd36Bone mineral density QTL 367.40.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)153361105871477291Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)153405413979054139Rat
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)154063126898288169Rat
724545Niddm54Non-insulin dependent diabetes mellitus QTL 540.02blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)155079449473699215Rat
2317050Aia24Adjuvant induced arthritis QTL 242.06joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)155284790873690657Rat
1576315Schws6Schwannoma susceptibility QTL 60.0069nervous system integrity trait (VT:0010566)post-insult time of death (CMO:0002005)155380615298806152Rat
61477Aia4Adjuvant induced arthritis QTL 43joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)155559608991365858Rat
631516Gluco31Glucose level QTL 317blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)155559608995018120Rat
631655Bp126Blood pressure QTL 1264arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1558156477101769107Rat
2313080Bss65Bone structure and strength QTL 653.90.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)156099046873690657Rat
731177Uae26Urinary albumin excretion QTL 262.40.025urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1567588667101769107Rat
2300326Plaw1Placental weight QTL 1150.005placenta mass (VT:0004257)placenta wet weight (CMO:0002088)1568327165100062518Rat
724548Niddm55Non-insulin dependent diabetes mellitus QTL 550.02blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)156832736073699069Rat
1331724Bp223Blood pressure QTL 2233.53715arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)157369051895018228Rat
1641889Colcr6Colorectal carcinoma resistance QTL 62.90.0126intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)157369051899794247Rat
70182BpQTLcluster12Blood pressure QTL cluster 123.53arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)157369065795018120Rat


Additional Information

RGD Curation Notes
Note Type Note Reference
qtl_cross_type intercross  
qtl_general software used:one-way ANOVA and MAP MANAGER/QTX 2312767
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 measurement method: in the last 3 months modified fat-enriched chow was given; animals were killed at 215 days of age; cortical diaphyseal bone was measured and meta total CSA (mm2) determined by pQCT (peripheral quantitative computed tomography) 2312767