Bss116 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL: Bss116 (Bone structure and strength QTL 116) Rattus norvegicus

Symbol: Bss116
Name: Bone structure and strength QTL 116
RGD ID: 11528628
Trait: femur morphology trait   (VT:0000559)    
Measurement Type: femur length   (CMO:0000442)    
LOD Score: 6.46
P Value: 3.8E-7
Variance: Not Available
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21044,179,770 - 45,632,973RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.01045,114,283 - 45,744,081RGD_MAPPER_PIPELINERnor6.0
Rnor_5.01044,871,972 - 45,499,761RGD_MAPPER_PIPELINERnor5.0
RGSC_v3.41045,699,961 - 47,100,098RGD_MAPPER_PIPELINERGSC3.4
Cross Type: Not Available
Strains Crossed:
JBrowse: View Region in Genome Browser (JBrowse)
Model



Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
Experimental Data Annotations     Click to see Annotation Detail View

Clinical Measurement
femur length  (IDA)

Experimental Condition

Measurement Method

Vertebrate Trait

References

References - curated
# Reference Title Reference Citation
1. Fine mapping of bone structure and strength QTLs in heterogeneous stock rat. Alam I, etal., Bone. 2015 Dec;81:417-26. doi: 10.1016/j.bone.2015.08.013. Epub 2015 Aug 19.

Region

Genes in Region
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD IDSymbolNameChrStartStopSpecies
7739209LOC102546363uncharacterized LOC102546363104416722244185891Rat
735194Snap47synaptosome associated protein 47104419288644234435Rat
1307186Jmjd4jumonji domain containing 4104423446544242754Rat
1642427Zfp867zinc finger protein 867104424481344255223Rat
11445698LOC108352088ferritin light chain 1 pseudogene104425750144258431Rat
6488615Rpl18-ps6ribosomal protein L18, pseudogene 6104426352344264312Rat
1304611Zfp496zinc finger protein 496104426892344287795Rat
1308314Nlrp3NLR family, pyrin domain containing 3104432677044353814Rat
1333777Or2b11olfactory receptor family 2 subfamily B member 11104435839744359353Rat
1333969Or2aa1olfactory receptor family 2 subfamily AA member 1104437470244375661Rat
1582743Sbds-ps2Sbds, ribosome maturation factor, pseudogene 2104438817644397730Rat
41404206LOC120095414small nucleolar RNA SNORA44104439895344399078Rat
1333308Or2w25-ps1olfactory receptor family 2 subfamily W member 25, pseudogene 1104440245444403521Rat
2318500Rpl15-ps6ribosomal protein L15, pseudogene 6104441792844418542Rat
619947Mpripmyosin phosphatase Rho interacting protein104445394944573843Rat
41123932LOC120095110uncharacterized LOC120095110104451549644532629Rat
1311987Pld6phospholipase D family, member 6104457853644581187Rat
735088Flcnfolliculin104458862144607808Rat
2323819Dctpp1-ps1dCTP pyrophosphatase 1, pseudogene 1104460856944609566Rat
1303002Cops3COP9 signalosome subunit 3104461811544652807Rat
41140516LOC120095427U1 spliceosomal RNA104462913344629286Rat
1309622Nt5m5',3'-nucleotidase, mitochondrial104465284544680549Rat
1563669Med9mediator complex subunit 9104475066744765464Rat
619727Rasd1ras related dexamethasone induced 1104476645144775773Rat
3297Pemtphosphatidylethanolamine N-methyltransferase104477591044849990Rat
41129985Dnaja1-ps3DnaJ heat shock protein family (Hsp40) member A1, pseudogene 3104480690744809907Rat
7593322LOC102549418uncharacterized LOC102549418104489281744907459Rat
1308500Rai1retinoic acid induced 1104491323145008232Rat
69423Srebf1sterol regulatory element binding transcription factor 1104500763745029650Rat
1306728Tom1l2target of myb1 like 2 membrane trafficking protein104503603445158168Rat
1309150Drc3dynein regulatory complex subunit 3104514909445200659Rat
1305161Atpaf2ATP synthase mitochondrial F1 complex assembly factor 2104520565845221891Rat
1588894Gid4GID complex subunit 4104522155645247627Rat
1597232Rps4x-ps6ribosomal protein S4, X-linked, pseudogene 6104525177645252623Rat
1562380Drg2developmentally regulated GTP binding protein 2104525551245269971Rat
1561873Myo15amyosin XVA104527761945335953Rat
1309496Alkbh5alkB homolog 5, RNA demethylase104534488845366331Rat
40980764LOC120095380U7 small nuclear RNA104535895345359015Rat
1585025Rpl17l5ribosomal protein L17 like 5104536201245364050Rat
3012Llgl1LLGL scribble cell polarity complex component 1104537942345394096Rat
1307590FliiFLII, actin remodeling protein104539403245408051Rat
40939199LOC120095412small nucleolar RNA SNORA15104539922545399351Rat
1560728Mief2mitochondrial elongation factor 2104540805545414144Rat
1309320Top3aDNA topoisomerase III alpha104541921945457356Rat
1564621Smcr8SMCR8-C9orf72 complex subunit104545796245465101Rat
1312011Shmt1serine hydroxymethyltransferase 1104546869845490833Rat
1559667Btf3-ps15basic transcription factor 3, pseudogene 15104550194645502810Rat
1311243Dhrs7bdehydrogenase/reductase 7B104550434445537094Rat
41280493LOC120095440small nucleolar RNA SNORA48104551515045515292Rat
1309817Tmem11transmembrane protein 11104554275345557570Rat
1307740Natd1N-acetyltransferase domain containing 1104558015445590333Rat
7501583LOC102546946uncharacterized LOC102546946104559053045595233Rat
9217344Map2k3osmitogen-activated protein kinase kinase 3, opposite strand104559739645607992Rat
1306620Map2k3mitogen activated protein kinase kinase 3104560814545629492Rat

Markers in Region
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolExpected SizeChrStartStopSpeciesMatch
10874D10Rat83154104539382945394002Ratregion
38292D10Rat73178104488647444886644Ratregion
44742D10Got72138104419044944190587Ratregion
625802D10Got70216104467287144673087Ratregion
66712D10Mco13284104509282545093113Ratregion
67228D10Arb4102104527423445274336Ratregion
1641573D10Got413273104524243145242700Ratregion
5035987PMC357045P1177104459091844591095Ratregion
5035989PMC357045P6264104459762644597890Ratregion
5039306RH127631185104476523944765424Ratregion
5031312PMC134715P180104501483445014914Ratregion
5027423AI385541150104546969445469844Ratregion
5035314AA874795185104456875944568944Ratregion
5032941RH137040159104461827044618429Ratregion
5030791BE120073174104521373645213910Ratregion
5028525AI255295103104526965745269760Ratregion
5053643RH142767197104547424045474437Ratregion
5056287RH144291224104541361445413838Ratregion
5056771RH144570181104468354944683730Ratregion
5055435RH143799188104520861245209188Ratregion
5059532BE097217149104541668145416830Ratregion
5054889RH143483109104504620645046315Ratregion
5058136BF386674170104552300345523173Ratregion
5055439RH143802114104481207844812192Ratregion
5052593RH125834223104554280445543027Ratregion
5055655RH143926247104534443745344684Ratregion
5058318AA859242219104456879444569013Ratregion
5058456BE096165158104496743844967596Ratregion
5050144RH133887204104539367945393883Ratregion
5051064RH134418189104467889144679080Ratregion
5054291RH143140183104559747945597662Ratregion
5053367RH142607173104553303645533209Ratregion
5044704RH130756181104536694945367130Ratregion
5041132RH128681190104546862445468814Ratregion
5041188RH128713155104539409745394252Ratregion
5048122RH132721220104559243545592655Ratregion
5042004RH129183155104536987145370026Ratregion
5047298RH132247210104500776645007976Ratregion
5047304RH132250187104476619744766384Ratregion
5042598RH1295310104461816544618382Ratregion
5040242RH128171187104562927245629460Ratregion
5039600RH127799216104520580045206013Ratregion
5042104RH129242186104558019645580382Ratregion
5043328RH129963180104526327345263781Ratregion
5043546RH130087184104458865644588840Ratregion
5040132RH128107185104503612845036313Ratregion
5042654RH129564211104539414845394359Ratregion
5042756RH129627188104503603245036222Ratregion
5040616RH128385200104476664744766847Ratregion
5043038RH129793181104553679645536977Ratregion
5043058RH129807188104541942945419617Ratregion
5072010RH135413196104555801145558207Ratregion
5074084RH137811174104453807744538251Ratregion
5075274RH138500121104426591744266038Ratregion
5077886RH140016180104526973945269919Ratregion
5070590RH134589182104524876445248946Ratregion
5071540RH135141180104503874545038925Ratregion
5074038RH137783239104493499544935234Ratregion
5073538RH137494191104513278245132973Ratregion
5063322BE107530185104524494845245133Ratregion
5063422BF404236171104451024844510419Ratregion
5060234BF400866148104498627644986424Ratregion
5062136BE112807165104519916845199333Ratregion
5062278BE106469199104536569345365892Ratregion
5061018BF389720214104504844045048653Ratregion
5061060AI112747204104524751445247719Ratregion
5061160BE111005196104451030444510500Ratregion
5064778BF411669216104447542844475644Ratregion
5061508BE105349150104524545245245602Ratregion
5087590PMC357045P10178104459195344592131Ratregion
5087594PMC357045P12269104458939544589664Ratregion
5087598PMC357045P3329104460104344601372Ratregion
5087602PMC357045P5299104459861244598911Ratregion
5087604PMC357045P7221104459623744596458Ratregion
5087608PMC357045P9175104459259944592774Ratregion
5089485AU049183267104438869644388963Ratregion
5083921AI230942199104517491045175109Ratregion
5090087AU049542268104559090545591171Ratregion
5087592PMC357045P11381104459084144591222Ratregion
5087596PMC357045P2737104460036644601103Ratregion
5087600PMC357045P4232104460023344600465Ratregion
5087606PMC357045P8259104459530344595562Ratregion
5506015UniSTS:497306487104499419344994680Ratregion
5506017UniSTS:497308701104500636545007066Ratregion
5506551MAP2K3_360952104562841745629369Ratregion
5506891G47349249104472996444730215Ratregion
5500075UniSTS:236593204104541329145413495Ratregion
5501303D8S281707104554151045542217Ratregion
11528625rs105872339104507661145076611Ratregion
11528626rs198350962104417977044179770Ratregion
11528627rs105202638104563297345632973Ratregion
11528629rs105809441104494716344947163Ratregion
11528630rs106226950104543393345433933Ratregion
Position Markers

Flank 1: (rs198350962)
Rat AssemblyChrPosition (strand)Source
mRatBN7.21044,179,770 - 44,179,770RGD
Rnor_6.01045,744,081 - 45,744,081RGD
Peak: (rs105872339)
Rat AssemblyChrPosition (strand)Source
mRatBN7.21045,076,611 - 45,076,611RGD
Rnor_6.01046,639,495 - 46,639,495RGD
Flank 2: (rs105202638)
Rat AssemblyChrPosition (strand)Source
mRatBN7.21045,632,973 - 45,632,973RGD
Rnor_6.01045,114,283 - 45,114,283RGD


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61441Btemp1Thermal response to stress QTL 14body temperature trait (VT:0005535)core body temperature (CMO:0001036)103539245763642539Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
152025229Scl83Serum cholesterol level QTL 834.33blood cholesterol amount (VT:0000180)103571058068663659Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103129743976297439Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101527595560275955Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)104114263386142633Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103063205375632053Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1042045676104670812Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
61332Eau3Experimental allergic uveoretinitis QTL 30.004uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)103449055945579777Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
61463Bp12Blood pressure QTL 126.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104133325886333258Rat
11528631Bss117Bone structure and strength QTL 1176.414e-07femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)104494716345433933Rat
8694173Bw149Body weight QTL 1494.380.001body mass (VT:0001259)body weight gain (CMO:0000420)104444169989441699Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104502965095600334Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
11528628Bss116Bone structure and strength QTL 1166.464e-07femur morphology trait (VT:0000559)femur length (CMO:0000442)104417977045632973Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101816784163167841Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102132980561345413Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102845313673453136Rat
1358897Stresp6Stress response QTL 64.170.022blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)103539226764155584Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102929950464155584Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102694462871944628Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)14232313287323132Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589030Epfw9Epididymal fat weight QTL 919.240.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)104444169989441699Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)104232313287323132Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102242750090627625Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10538701450387014Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101502851360430477Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
2317043Aia7Adjuvant induced arthritis QTL 73.82joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)103756507982565079Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102652195761345413Rat
2317042Aia20Adjuvant induced arthritis QTL 203.38joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)103756507982565079Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
2313087Bmd80Bone mineral density QTL 803.20.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)101960648364606483Rat
1354614Hpcl1Hepatic cholesterol level QTL 13.3liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)103539226751793994Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101790711351786432Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103397392178973921Rat
8552805Bw145Body weight QTL 1452.2body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)104194452678307017Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
1600371Mcs21Mammary carcinoma susceptibility QTL 213mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)102887565052200160Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1040035094102359817Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103122402675632053Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
7411614Foco18Food consumption QTL 180.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)104444169989441699Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)104287676679813922Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2313055Bw96Body weight QTL 963.60.0001body mass (VT:0001259)body weight (CMO:0000012)101960648364606483Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat


Additional Information

RGD Curation Notes
Note Type Note Reference
qtl_general number of animals used: 1524 HS rats (728 male, 796 female) were used. 11528619
qtl_general measurement method: Rats on a standard diet were euthanized at 17 to 20 weeks of age, and left femurs were measured using digital calipers (Mitutoyo, Aurora, IL). 11528619