Bss17 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Bss17 (Bone structure and strength QTL 17) Rattus norvegicus

Symbol: Bss17
Name: Bone structure and strength QTL 17
RGD ID: 1578675
Trait: femur morphology trait   (VT:0000559)    
Measurement Type: femoral neck cortical cross-sectional area   (CMO:0001702)    
LOD Score: 3.8
P Value: Not Available
Variance: Not Available
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.293,368,652 - 13,533,896RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.091,907,834 - 15,555,026RGD_MAPPER_PIPELINERnor6.0
Rnor_5.091,861,508 - 14,478,042RGDRnor5.0
RGSC_v3.494,796,492 - 8,991,332RGDRGSC3.4
RGSC_v3.194,796,487 - 8,988,654RGD
Cross Type: Not Available
Strains Crossed: F344/NHsd LEW/NHsd 
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

Experimental Condition

Vertebrate Trait

Rat Strain
F344/NHsd  (IEA)
LEW/NHsd  (IEA)

References

References - curated
# 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;.

Region

Genes in Region
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD IDSymbolNameChrStartStopSpecies
69270Slc5a7solute carrier family 5 member 7975954407626258Rat
2293Ccnd3cyclin D391339416113400341Rat
3943Pgcprogastricsin91325746213265682Rat
620936Rab5aRAB5A, member RAS oncogene family964839066512877Rat
727959Byslbystin-like91338280613392557Rat
621064Sult1c2sulfotransferase family 1C member 2968248406848830Rat
621070Kif6kinesin family member 691107620311373205Rat
2549Kcnh8potassium voltage-gated channel subfamily H member 8955060445945828Rat
70976Nfyanuclear transcription factor Y subunit alpha91258743712613911Rat
3768Sult1c3sulfotransferase family 1C member 3972215807266991Rat
1306415Med20mediator complex subunit 2091337014613382756Rat
1306128Daam2dishevelled associated activator of morphogenesis 291142891311546982Rat
1305561Satb1SATB homeobox 1946778174773061Rat
1305902Kat2blysine acetyltransferase 2B965625256667064Rat
1305885Sult1c2asulfotransferase family 1C member 2A968736976904736Rat
1308423Taf8TATA-box binding protein associated factor 891349189213511713Rat
1309583Tfebtranscription factor EB91319889013254726Rat
1308471Mocs1molybdenum cofactor synthesis 191154753311573935Rat
1305941Plcl2phospholipase C-like 2932925643477009Rat
1308727Apobec2apolipoprotein B mRNA editing enzyme catalytic subunit 291256495512578461Rat
1308299Oard1O-acyl-ADP-ribose deacylase 191257689412587264Rat
1307182B430306N03RiklRIKEN cDNA B430306N03 gene91268129012690555Rat
1310226Frs3fibroblast growth factor receptor substrate 391328855913297285Rat
1309841Trem2triggering receptor expressed on myeloid cells 291264760512654190Rat
1311386Foxp4forkhead box P491305850613115406Rat
1305477Trem3triggering receptor expressed on myeloid cells 391274982112762547Rat
1309467Trem1triggering receptor expressed on myeloid cells 191276381912779285Rat
1311406Ncr2natural cytotoxicity triggering receptor 291277719512828437Rat
1563979Prickle4prickle planar cell polarity protein 491329749413305635Rat
1560901Acta1-ps2actin, alpha 1, skeletal muscle, pseudogene 2975012257502327Rat
1563347Rftn1raftlin lipid raft linker 191080461111002084Rat
15649864932415M13RiklRIKEN cDNA 4932415M13 gene like967079916732613Rat
1564811Pp2d1protein phosphatase 2C-like domain containing 1965122826533653Rat
1359641Adgre4adhesion G protein-coupled receptor E4997581069901908Rat
1559808Rps26-ps12ribosomal protein S26, pseudogene 12960190316020447Rat
1562800Spetex2l1Spetex-2 protein like 1961724896180127Rat
1562851Rpl31-ps7ribosomal protein L31, pseudogene 7948447734845186Rat
1559663St6gal2ST6 beta-galactoside alpha-2,6-sialyltransferase 2991817449274161Rat
1560271MdfiMyoD family inhibitor91315680613175218Rat
1310513Usp49ubiquitin specific peptidase 4991330564013366132Rat
1559960Sult1c2al1sulfotransferase family 1C member 2A like 1971612167203145Rat
1311831Lrfn2leucine rich repeat and fibronectin type III domain containing 291189742512066177Rat
15858341700067P10RiklRIKEN cDNA 1700067P10 gene like91289529412896592Rat
1585869Ncr2l1natural cytotoxicity triggering receptor 2 like 191284354212858881Rat
1583567Tomm6translocase of outer mitochondrial membrane 691330426913305637Rat
1582873Pot1bprotection of telomeres 1B996703559728624Rat
1582883Vom2r77vomeronasal 2 receptor, 77995728749638896Rat
1587368Unc5clunc-5 family C-terminal like91252810912543382Rat
1566407EfhbEF hand domain family, member B963721916441678Rat
1583959LOC691414hypothetical protein LOC691414999547209964136Rat
1561662C9h6orf132similar to human chromosome 6 open reading frame 13291352482213561756Rat
1561626Tbc1d5TBC1 domain family, member 5935033284017131Rat
1565959RGD1565959RGD156595991287369712886364Rat
1565175Treml1triggering receptor expressed on myeloid cells-like 191263558412642324Rat
1591345Girdinl1girders of actin filaments like 191066477010683943Rat
1588569Vom2r76vomeronasal 2 receptor, 76994679619492317Rat
1590872Vom2r-ps138vomeronasal 2 receptor, pseudogene 138999264929946415Rat
1592929Eif4g1-ps2eukaryotic translation initiation factor 4 gamma 1, pseudogene 2978568797861321Rat
1589660Taldo1-ps1transaldolase 1, pseudogene 1982753008276318Rat
1588537Spetex-2Fl1Spetex-2F protein like 191007694910085216Rat
1584839Kcnk16-ps1potassium two pore domain channel subfamily K member 16, pseudogene 191105906911064995Rat
1587021Treml4triggering receptor expressed on myeloid cells-like 491271896812743879Rat
1587039Treml2triggering receptor expressed on myeloid cells-like 291269445312705379Rat
1596997Rbbp4-ps1RB binding protein 4, chromatin remodeling factor, pseudogene 1962818786283078Rat
1591714Dazldeleted in azoospermia-like91069559310712330Rat
1594018Tspo2translocator protein 291254461512548563Rat
1593238Sgo1shugoshin 1966721096687908Rat
2322325Fbxw2-ps1F-box and WD repeat domain containing 2, pseudogene 1983847868389434Rat
2323094Rps20-ps12ribosomal protein S20, pseudogene 12941590734159432Rat
2322726Kin-ps1Kin17 DNA and RNA binding protein, pseudogene 191183393011835584Rat
2323380Fcf1-ps6Fcf1 rRNA-processing protein, pseudogene 6949327784949393Rat
2323495Gosr1-ps1golgi SNAP receptor complex member 1, pseudogene 1962500516250572Rat
6494554Rpl5-ps2ribosomal protein L5, pseudogene 291166787811669951Rat
64928821700122O11RiklRIKEN cDNA 1700122O11 gene like91293744412943012Rat
6496783Fbxw2-ps3F-box and WD repeat domain containing 2, pseudogene 3984033958408043Rat
7538729Cfl1-ps4cofilin 1, pseudogene 4960564456057501Rat
7650881LOC102547352uncharacterized LOC10254735291188214611883458Rat
7642378N4bp1-ps2Nedd4 binding protein 1, pseudogene 2997173159720322Rat
7629065LOC102548435uncharacterized LOC10254843591266494012672794Rat
7570521LOC102548200uncharacterized LOC10254820091244695312450780Rat
7594246LOC102554116uncharacterized LOC10255411691303256913038429Rat
7556959Sik3-ps1SIK family kinase 3, pseudogene 1995068299510000Rat
7751678Rpl10-ps10ribosomal protein L10, pseudogene 10936163773621886Rat
7706024LOC102547840uncharacterized LOC10254784091241534912423539Rat
7683517LOC102547709uncharacterized LOC10254770991225737912272305Rat
7710987LOC102554309uncharacterized LOC10255430991326177413266883Rat
9112006Rpl27al9ribosomal protein L27A like 9985164298517495Rat
9281506Spetex2gl1Spetex-2G protein like 19997335310002936Rat
9400366LOC103690615transmembrane protein 234-like963822126382523Rat
11357182LOC10835201660S ribosomal protein L26 pseudogene943833894383798Rat
11438663LOC10835187660S ribosomal protein L7 pseudogene997649519765788Rat
11396250Spetex2el3Spetex-2E protein like 391002522110036771Rat
11484729LOC108351887uncharacterized LOC10835188791165233911678809Rat
41168059LOC120094782uncharacterized LOC120094782936842543705902Rat
41279270Fbxw2-ps4F-box and WD repeat domain containing 2, pseudogene 4983940838398728Rat
41285703LOC120094630uncharacterized LOC12009463091157517911591773Rat
41389612LOC120094832ERC protein 2-like91005061210051922Rat
41179785LOC120094634uncharacterized LOC12009463491341234313489689Rat
41266739LOC120094624uncharacterized LOC120094624959646216246324Rat
41370247Ndufb1-ps1NADH:ubiquinone oxidoreductase subunit B1, pseudogene 1935950303595591Rat
41218959LOC120094631uncharacterized LOC12009463191181960811833871Rat
41399553LOC120094882small nucleolar RNA SNORA70963843726384506Rat
41072519Rps17-ps11ribosomal protein S17, pseudogene 11958984675905781Rat
41161618LOC120094889small nucleolar RNA SNORA44942814814281609Rat
41403358LOC120094907small nucleolar RNA SNORA48966078666608000Rat
41295786LOC120094632uncharacterized LOC12009463291241647712417396Rat
41320429LOC120093086sulfotransferase 1C2-like969626047131268Rat
40953770LOC120094625uncharacterized LOC120094625969564486962274Rat
40981102LOC120094948U1 spliceosomal RNA957772475777398Rat
40935681LOC120094870U6 spliceosomal RNA996740979674202Rat
40988429LOC120094938U1 spliceosomal RNA91170829711708457Rat
41143660Hnrnpd-ps2heterogeneous nuclear ribonucleoprotein D, pseudogene 2987123408713866Rat
41144581Trnas-aga49transfer RNA serine (anticodon AGA) 49964455866445666Rat
41031628LOC120094909small nucleolar RNA SNORA1791238394412384075Rat
41041357Rcn1-ps7reticulocalbin 1, pseudogene 791006702710067832Rat
41022215LOC120094839uncharacterized LOC12009483991285926412864171Rat

Markers in Region
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolExpected SizeChrStartStopSpeciesMatch
10252D7Mit1213691077552010775580Ratregion
34264D9Mgh5150958577835857951Ratregion
36151D9Rat4616991076977510769932Ratregion
37468D9Rat162233933686523368873Ratregion
37692D9Rat8221691131173811311958Ratregion
37776D9Rat8820991112370211123900Ratregion
35623D9Rat4113391353377013533896Ratregion
35695D9Rat44176951098265109995Ratregion
35733D9Rat45158942953494295513Ratregion
40170D9Rat13513591176556411765695Ratregion
41218D9Rat13413091345703913457174Ratregion
41272D9Rat139137958596955859822Ratregion
41490D9Rat138167985680328568177Ratregion
44549D9Got1511591173586111735976Ratregion
44550D9Got1226491102999111030254Ratregion
44551D9Got1440191184997111850371Ratregion
44553D9Got1615191338053513380686Ratregion
60643D9Got10173976083627608534Ratregion
60652D9Got1316491124880511248969Ratregion
60659D9Got2151950127845012935Ratregion
60661D9Got3292948016044801896Ratregion
60662D9Got4137935572663557403Ratregion
60663D9Got5120934920473492167Ratregion
60667D9Got6172948015994801772Ratregion
60668D9Got7192946752864675478Ratregion
60669D9Got8286943017314302019Ratregion
60670D9Got9147959002275900374Ratregion
60825D9Wox20107987630218763131Ratregion
60826D9Wox22152979545577954713Ratregion
60827D9Wox23160979545567954720Ratregion
62508D9Uia1187992644979264638Ratregion
1631969D9Wox2816791340125813401435Ratregion
1641215D9Cebr3178934786283478806Ratregion
1636087D9Wox4491340079313400943Ratregion
1636259D9Cebr191087323910873477Ratregion
1637006D9Got245229982103738210602Ratregion
1634267D9Got231267987777998778067Ratregion
7205916D2S21540969439706944119Ratregion
5028637RH125689201987138678714067Ratregion
7205848GAK__6772498940872574087688Ratregion
5031526AU048038185954782085478393Ratregion
5031956AU046569252955622245562477Ratregion
5026628RH13293519891258627212586470Ratregion
5026726RH13330119591330576713305962Ratregion
5029919BE10318319791188325611883453Ratregion
5030057AW53151121791107622111076438Ratregion
5035204BE09855015991350193413502093Ratregion
5033153RH13779517791202572712025900Ratregion
5025204RH12741621491330514913305532Ratregion
5027819RH9486719091261161312611803Ratregion
5033551RH13923912191261363012613751Ratregion
5031029BE12123316791310130613101473Ratregion
5033751RH13998719091252832412528514Ratregion
5053913RH14292324391096244910962692Ratregion
5052147RH9486619091261160312611793Ratregion
5054461RH143237253987133198713568Ratregion
5057882BF39288114391242318312423326Ratregion
5055161RH14364113091266532212665452Ratregion
5056449RH14438521491337256013372774Ratregion
5055249RH143692133958327485832881Ratregion
5052551U05252157946812684681425Ratregion
5058984BE10266915091264666412646814Ratregion
5053597RH14274113991352289313523032Ratregion
5044466RH13061918091108912311089303Ratregion
5044610RH13070319591311505713115252Ratregion
5041036RH12862620291257812812578330Ratregion
5041724RH129022183968755546875737Ratregion
5041724RH129022183968755546875737Ratregion
5045328RH131115215934763233476538Ratregion
5047532RH13238120991261158012611789Ratregion
5046012RH131508214934790803479294Ratregion
5049384RH133450189972216527221841Ratregion
5049430RH133476180987148138714993Ratregion
5048190RH132760183965295126529695Ratregion
5042154RH129271150965148486514998Ratregion
5042204RH12929921091330538513305595Ratregion
5040150RH128118217935125303512747Ratregion
5043778RH13022219091154669911546889Ratregion
5040454RH12829220691257702912577235Ratregion
5076364RH13913212491293788712938011Ratregion
5077456RH139767199946803274680526Ratregion
5077656RH139882217936737963674013Ratregion
5078316RH14027020691339222613392432Ratregion
5072940RH13714218091154753711547717Ratregion
5073630RH13754716291348817313488334Ratregion
5071184RH13493618591263561112635796Ratregion
5073414RH13742218691100293511003122Ratregion
5071960RH13538418191351868113518862Ratregion
5072170RH13669312391258828612588409Ratregion
5063376BI30178720991236329412363504Ratregion
5067640AU04762312091092899210929112Ratregion
5068548AU04708019491304802313048217Ratregion
5068616AU047037210982408818240924Ratregion
5069246AU04662328991122706611227350Ratregion
5062684BF40384321291181977811820231Ratregion
5062148BE10626318091337305613373236Ratregion
5063602BE10782015091339057113390730Ratregion
5086598AA89179620991330538113305590Ratregion
5082751BF39002024591347642313476668Ratregion
5089123AU048967144965329966533142Ratregion
5083255BI27583710491325808013258839Ratregion
5088247AU04845419291288859512888787Ratregion
5089297AU04907220791092887610929083Ratregion
5089659AU04928625591131173811311993Ratregion
5087805D5Wsu145e276987149268715204Ratregion
5085451BM39039516091169231311692473Ratregion
5090429AU049745282982536598253941Ratregion
5081006RH14190915891352484713525005Ratregion
5503272UniSTS:237662129933977043397833Ratregion
5507819REN5932125391291399012914243Ratregion
5505506D4S33301671990139299015512Ratregion
5506491D11S41431536976654537666991Ratregion
5506698REN3602081491148830111489115Ratregion
5507005fj02h10.x1332949715104971842Ratregion
5500424REN6052925091320278613203036Ratregion
5499697Dazl110691070094810702054Ratregion
5502303RH12435427391339416613394439Ratregion
5500605RH136188207965116546511861Ratregion
5500414REN5958323691297041612970652Ratregion
5500416REN5959524091297311212973352Ratregion
5500418REN5982725291303250213032754Ratregion
5500420REN5999425491307481213075066Ratregion
5500422REN6051524791319949513199742Ratregion
5500450AW184596286975018637502149Ratregion
5500649RH136456190965116546511844Ratregion
5503436stSG63486098491310355213104536Ratregion
5500897D4S157952291096758210968104Ratregion
Position Markers

Flank 1: (D9Rat162)
Rat AssemblyChrPosition (strand)Source
mRatBN7.293,368,652 - 3,368,873 (-)MAPPER
Rnor_6.091,907,834 - 1,908,054NCBI
Rnor_5.091,861,508 - 1,861,728UniSTS
RGSC_v3.494,796,492 - 4,796,713RGD
RGSC_v3.494,796,493 - 4,796,713UniSTS
RGSC_v3.194,796,487 - 4,796,788RGD
Celera9273,295 - 273,515UniSTS
SHRSP x BN Map90.0RGD
SHRSP x BN Map90.0UniSTS
Cytogenetic Map9q11UniSTS
Flank 2: (D9Rat41)
Rat AssemblyChrPosition (strand)Source
mRatBN7.2913,533,770 - 13,533,896 (+)MAPPER
Rnor_6.0915,554,901 - 15,555,026NCBI
Rnor_5.0914,477,917 - 14,478,042UniSTS
RGSC_v3.498,991,206 - 8,991,332RGD
RGSC_v3.498,991,207 - 8,991,332UniSTS
RGSC_v3.198,988,529 - 8,988,654RGD
Celera911,284,240 - 11,284,365UniSTS
RH 3.4 Map946.9RGD
RH 3.4 Map946.9UniSTS
RH 2.0 Map948.0RGD
SHRSP x BN Map911.8399RGD
Cytogenetic Map9q12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054141Gmadr4Adrenal mass QTL 42.450.0074adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)9114209783Rat
70226Eae4Experimental allergic encephalomyelitis QTL 4nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)9125661317Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9125408446254084Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9125408446254084Rat
631533Iresp3Immunoglobin response QTL316.2blood immunoglobulin E amount (VT:0002492)serum immunoglobulin E level (CMO:0002101)927457995857951Rat
1578675Bss17Bone structure and strength QTL 173.8femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)9336865213533896Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9510982642921101Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9510982650109826Rat
11353947Bp392Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)9728325252283252Rat
61450Ciaa3CIA Autoantibody QTL 36.5blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)9795472022071169Rat
9589133Insul26Insulin level QTL 2617.960.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)9895256053952560Rat
7411609Foco16Food consumption QTL 1625.60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9895256053952560Rat
1600365Mcs20Mammary carcinoma susceptibility QTL 203mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)91353377042791750Rat


Additional Information

RGD Curation Notes
Note Type Note Reference