Sach2 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Sach2 (Saccharin preference QTL 2) Rattus norvegicus

Symbol: Sach2
Name: Saccharin preference QTL 2
RGD ID: 631833
Trait: consumption behavior trait   (VT:0002069)    
Measurement Type: calculated saccharin drink intake rate   (CMO:0001613)    
LOD Score: 4.0
P Value: 0.01
Variance: 5.0
Inheritance Type: additive
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21643,024,842 - 50,166,018RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.01645,905,097 - 53,253,355RGD_MAPPER_PIPELINERnor6.0
Rnor_5.01645,651,035 - 52,968,648RGDRnor5.0
RGSC_v3.41646,137,355 - 53,486,191RGDRGSC3.4
RGSC_v3.11646,137,430 - 53,486,309RGD
Cross Type: Intercross
Strains Crossed: iP/Iusm iNP/Iusm 
JBrowse: View Region in Genome Browser (JBrowse)
Model



Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
saccharin preference  (IAGP,IDA)
Experimental Data Annotations     Click to see Annotation Detail View

Clinical Measurement

Experimental Condition

Measurement Method

Vertebrate Trait

Rat Strain
iNP/Iusm  (IEA)
iP/Iusm  (IEA)

References

References - curated
# Reference Title Reference Citation
1. Mapping of QTL influencing saccharin consumption in the selectively bred alcohol-preferring and -nonpreferring rat lines. Foroud T, etal., Behav Genet 2002 Jan;32(1):57-67.

Region

Genes in Region
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD IDSymbolNameChrStartStopSpecies
1306641Tenm3teneurin transmembrane protein 3164125190943978594Rat
40956051LOC120097606small nucleolar RNA SNORA17164323777243237902Rat
7688695LOC102552563uncharacterized LOC102552563164398378543991280Rat
41009377Mif-ps4macrophage migration inhibitory factor, pseudogene 4164405798844058997Rat
1359671DctddCMP deaminase164406695244098654Rat
41383168LOC120097446uncharacterized LOC120097446164416121244164003Rat
1596760Rps15a-ps8ribosomal protein S15a, pseudogene 8164417052644170972Rat
7540575LOC102551022uncharacterized LOC102551022164419602144205176Rat
1559427Wwc2WW and C2 domain containing 2164425837244421815Rat
1305271Cldn22claudin 22164442234444423370Rat
1562043Cldn24claudin 24164442481044425472Rat
7594186LOC102551260uncharacterized LOC102551260164449135344497591Rat
1305302Cdkn2aipCDKN2A interacting protein164453614744546216Rat
1307347Ing2inhibitor of growth family, member 2164457359244584180Rat
1587353Ndufaf7-ps1NADH:ubiquinone oxidoreductase complex assembly factor 7, pseudogene 1164461422644615701Rat
1560302Erh-ps2ERH, mRNA splicing and mitosis factor, pseudogene 2164463136644632601Rat
1564132Rwdd4RWD domain containing 4164471469844733090Rat
1309765Trappc11trafficking protein particle complex subunit 11164473316944779324Rat
7580994LOC102551690uncharacterized LOC102551690164480445644810885Rat
41108070LOC120097672small nucleolar RNA SNORA70164481066844810803Rat
708477Stox2storkhead box 2164484817945087238Rat
41167470LOC120097575uncharacterized LOC120097575164487462344880702Rat
9368194LOC103693959uncharacterized LOC103693959164512509845180386Rat
1311645Enpp6ectonucleotide pyrophosphatase/phosphodiesterase 6164516588345294126Rat
1597769Ptmal4prothymosin alpha like 4164529538245307996Rat
7633194LOC102551895uncharacterized LOC102551895164533044745337282Rat
40949490LOC120097410uncharacterized LOC120097410164533760745339067Rat
1597747Ndufa3-ps1NADH:ubiquinone oxidoreductase subunit A3, pseudogene 1164536942845369682Rat
1304922Irf2interferon regulatory factor 2164543921545550054Rat
7619887LOC102552290uncharacterized LOC102552290164544824545462686Rat
40947202Ube2v1-ps3ubiquitin conjugating enzyme E2 V1, pseudogene 3164551413945514882Rat
40975017LOC120097385uncharacterized LOC120097385164555781545634329Rat
1592034Rpl4-ps3ribosomal protein L4, pseudogene 3164565621045657689Rat
2275Casp3caspase 3164566291045681171Rat
1562119Primpolprimase and DNA directed polymerase164568125245715758Rat
1562566Cenpucentromere protein U164571582145739038Rat
2015Acsl1acyl-CoA synthetase long-chain family member 1164575524645821541Rat
11492380LOC108348397uncharacterized LOC108348397164582156945837350Rat
41085564LOC120097625small nucleolar RNA SNORA26164588255245882683Rat
40948478LOC120097416uncharacterized LOC120097416164588353645886632Rat
41398591LOC120097417uncharacterized LOC120097417164588546545891183Rat
7538198LOC102553008uncharacterized LOC102553008164590194245914770Rat
11366572LOC108353101glyceraldehyde-3-phosphate dehydrogenase pseudogene164593892345943631Rat
41292406LOC120097420uncharacterized LOC120097420164596851945974350Rat
1564073Helthelt bHLH transcription factor164599122745993045Rat
41047665Trnat-agu36transfer RNA threonine (anticodon AGU) 36164600166546001745Rat
620352Slc25a4solute carrier family 25 member 4164607293546076730Rat
1307325Cfap97cilia and flagella associated protein 97164608610446135194Rat
1310150Snx25sorting nexin 25164613455246238471Rat
40946287LOC120097653U6 spliceosomal RNA164616119046161295Rat
1305896Lrp2bpLrp2 binding protein164624155446269221Rat
1565715Ankrd37ankyrin repeat domain 37164626893346271971Rat
1311161Ufsp2UFM1-specific peptidase 2164627201646291080Rat
1564308Cfap96cilia and flagella associated protein 96164629107546315616Rat
1564538Ccdc110coiled-coil domain containing 110164631574546337050Rat
620427Pdlim3PDZ and LIM domain 3164635246046383680Rat
41168026LOC120097631U6atac minor spliceosomal RNA164640181646401933Rat
1583491Gapdh-ps100Glyceraldehyde-3-phosphate dehydrogenase, pseudogene 100164641375346414771Rat
41260400LOC120097373uncharacterized LOC120097373164642924046438631Rat
620061Sorbs2sorbin and SH3 domain containing 2164643522046748743Rat
41125224LOC120097374uncharacterized LOC120097374164660853746610271Rat
41305805LOC120097598small nucleolar RNA SNORA17164667983146679962Rat
41180056LOC120097435uncharacterized LOC120097435164680461246813785Rat
735171Tlr3toll-like receptor 3164682198046837900Rat
1586153Fam149afamily with sequence similarity 149, member A164685537746914553Rat
708530Cyp4v3cytochrome P450, family 4, subfamily v, polypeptide 3164691792946958735Rat
1589656Tuba1b-ps9tubulin, alpha 1B, pseudogene 9164695173246954254Rat
67382Klkb1kallikrein B1164695863446982054Rat
1309364F11coagulation factor XI164698798847009015Rat
620797Mtnr1amelatonin receptor 1A164714446147163919Rat
621254Fat1FAT atypical cadherin 1164717725347296261Rat
1588596Aldoa-ps1aldolase, fructose-bisphosphate A, pseudogene 1164749076147492204Rat
11411172LOC108348398uncharacterized LOC108348398164763321647650775Rat
1563604Ptrh2-ps1peptidyl-tRNA hydrolase 2, pseudogene 1164787217247872720Rat
7530546LOC102554462uncharacterized LOC102554462164795427547989673Rat
41329707LOC120097644U6 spliceosomal RNA164804191948042025Rat
1589009Edf1-ps4endothelial differentiation-related factor 1, pseudogene 4164848871248489307Rat
1307052Adam34la disintegrin and metalloprotease domain 34-like164853645648542246Rat
1589040Adam34a disintegrin and metallopeptidase domain 34164855738548561744Rat
1589057Calcoco2-ps1calcium binding and coiled-coil domain 2, pseudogene 1164859537948600523Rat
1559501Adam26aa disintegrin and metallopeptidase domain 26A164860099848608314Rat
1559626Atp5hl1ATP synthase, H+ transporting, mitochondrial Fo complex, subunit d-like 1164862834948628948Rat
41257946Ncor1-ps1nuclear receptor co-repressor 1, pseudogene 1164867287348673861Rat
41113289Hmgb1-ps28high-mobility group box 1, pseudogene 28164874559648746342Rat
2319133Zfp42zinc finger protein 42164883646348845443Rat
11444868Rpl23-ps1ribosomal protein L23,pseudogene 1164888529148885721Rat
1587863Snrpc-ps1small nuclear ribonucleoprotein polypeptide C, pseudogene 1164891588248918885Rat
1565382Triml2tripartite motif family-like 2164894471248960949Rat
1593988Baz2a-ps1bromodomain adjacent to zinc finger domain, 2A, pseudogene 1164898277748989498Rat
1305337Triml1tripartite motif family-like 1164899496849005343Rat
41141043LOC120097661U6 spliceosomal RNA164948311249483211Rat
9999338Rps27a-ps15ribosomal protein S27a, pseudogene 15164959036749590926Rat
9999339Rps27a-ps16ribosomal protein S27a, pseudogene 16165003563450036049Rat

Markers in Region
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolExpected SizeChrStartStopSpeciesMatch
10841D16Wox13115164697584246975959Ratregion
10842D16Mgh5162164697580146975965Ratregion
34007D16Mit3143164423590444236047Ratregion
34066D16Mgh1235164302484243025077Ratregion
34553D16Mgh6100164586839745868497Ratregion
37054D16Rat17188165016582850166018Ratregion
34894D16Rat29143164605335446053497Ratregion
39936D16Rat96203164700891247009115Ratregion
40524D16Rat67220164682540246825624Ratregion
40030D16Rat98144164729970747299837Ratregion
38888D16Rat45231164524214945242380Ratregion
42028D16Arb8120164586837445868494Ratregion
43072D16Rat116215164897251248972724Ratregion
42410D16Rat129219164524119245241409Ratregion
60125D16Got44225164672004846720273Ratregion
45342D16Got36142164329606043296202Ratregion
45347D16Got38247164526597945266226Ratregion
45348D16Got40220164728839447288612Ratregion
45351D16Got43119164788228147882400Ratregion
45352D16Got45137164765416847654304Ratregion
45353D16Got39276164774362547743901Ratregion
45354D16Got41196164859680148596997Ratregion
45356D16Got47121164814731948147441Ratregion
45357D16Wox4152164814398248144134Ratregion
45358D16Got46154164937164149371795Ratregion
62459D16Uia493164442996344430103Ratregion
66392D16Mco7138164765272447652862Ratregion
1578828D18Chm16164164838145748381490Ratregion
1630081D16Got105258164423337944233637Ratregion
1630617D16Got117178164556777745567955Ratregion
2315218D16Nkg5221164355379243554013Ratregion
2315224D16Nkg15248164382977843830026Ratregion
2315230D16Nkg4283164351564843515931Ratregion
2315244D16Nkg11304164368652143686825Ratregion
2315246D16Nkg25162164498350144983663Ratregion
2315248D16Nkg13294164382440043824694Ratregion
2315274D16Nkg26219164527420145274422Ratregion
2315284D16Nkg21206164416532144165529Ratregion
2315290D16Nkg24190164483512444835314Ratregion
2315294D16Nkg29266164533456945334835Ratregion
2315302D16Nkg28197164532269845322895Ratregion
2315306D16Nkg33217164539831845398717Ratregion
2315306D16Nkg33217164539850045398717Ratregion
2315314D16Nkg27266164532184045322106Ratregion
2315316D16Nkg10279164361822943618508Ratregion
2315318D16Nkg9215164359990643600121Ratregion
2315326D16Nkg32237164538032545380564Ratregion
2315330D16Nkg31177164534255245342731Ratregion
2315336D16Nkg1171164331048043310653Ratregion
2315338D16Nkg8207164359445643594666Ratregion
2315342D16Nkg16118164394708143947199Ratregion
2315352D16Nkg30204164533562345335827Ratregion
2315358D16Nkg6158164357406743574225Ratregion
2315360D16Nkg20193164414292344143116Ratregion
2315362D16Nkg23137164458423144584368Ratregion
2315372D16Nkg18158164389265743892815Ratregion
2315386D16Nkg17161164386540243865563Ratregion
2315388D16Nkg14502164382674743827249Ratregion
2315410D16Nkg22277164448871544488992Ratregion
2315418D16Nkg19340164406146944061809Ratregion
2315426D16Nkg12178164381188143812059Ratregion
2315428D16Nkg34335164641244646412781Ratregion
7206724D8Mit297114164659621146596325Ratregion
7205962Helt908164599170045992609Ratregion
5038916RH127406204164691421146914415Ratregion
7206260UniSTS:535021975164559935745600332Ratregion
5036296UniSTS:143077199164719728147197480Ratregion
5035629D4S3175107164607646046076567Ratregion
5029673BI277846157164406714144067298Ratregion
5027359AI449080134164508700545087139Ratregion
5035252BM385131188164642944946429637Ratregion
5030193BF389656139164727136447271503Ratregion
5030223AW532810156164659677546596931Ratregion
5030349AW533279211164575577445755985Ratregion
5033461RH138921138164571789845718036Ratregion
5030719BE107744158164508664645086804Ratregion
5033777RH140084195164456865144568846Ratregion
5054141RH143054228164635997646360204Ratregion
5055397RH143778257164497923944979496Ratregion
5057634BE101127164164607713746077301Ratregion
5054929RH143506212164508480145085013Ratregion
5058688BE096987197164361931743619514Ratregion
5055801RH144010215164689709446897309Ratregion
5056661RH144507195164508292145083116Ratregion
5058898BI284767183164406726644067449Ratregion
5059770BI291965145164623860646238751Ratregion
5059354AW530202180164689413646894316Ratregion
5053729RH142817104164359866943598773Ratregion
5050942RH134347192164445889544459070Ratregion
5054069RH143013132164570555645705688Ratregion
5050236RH133940197164623813146238328Ratregion
5052865RH142319191164607218246072373Ratregion
5051443AU023433142164717739547177537Ratregion
5044430RH130598216164597412645974342Ratregion
5043604RH130120186164471634344716529Ratregion
5045578RH131258666164627111846271784Ratregion
5045762RH1313640164588657045886747Ratregion
5041680RH128996220164575533145755551Ratregion
5044872RH130852185164454104744541232Ratregion
5047514RH132371204164521854645218750Ratregion
5045194RH131038189164694311746943306Ratregion
5046008RH131506180164458178044581960Ratregion
5046022RH131514198164694230646942504Ratregion
5048084RH132699206164692147946921685Ratregion
5049450RH133488191164566307645663267Ratregion
5047164RH132170217164453928044539497Ratregion
5039602RH127800200164393070443930904Ratregion
5040126RH128104188164608638046086568Ratregion
5041996RH129178194164691179446911988Ratregion
5041190RH128714218164683552246835740Ratregion
5041532RH128911202164471477844714980Ratregion
5075712RH138753140164572345245723592Ratregion
5074380RH137983161164627210146273449Ratregion
5075312RH138522184164442235444422538Ratregion
5077744RH139932195164599278745992982Ratregion
5076642RH139294133164482830144828434Ratregion
5076694RH139324121164664584346645964Ratregion
5075728RH138762136164406715144067287Ratregion
5080308RH141505207164576923545769442Ratregion
5066892AU048089168164487880644878974Ratregion
5069526AU04643988164450703344507121Ratregion
5069836AU04697494164831361148313707Ratregion
5060458BE098148184164608042146080605Ratregion
5060458BE098148184164608340946083593Ratregion
5063882BE120148212164515304945153261Ratregion
5065744BF406331198164553081245531010Ratregion
5063614BE107847154164441401444414168Ratregion
5065600BF406002210164508278345082993Ratregion
5065688BE109620155164647107946471234Ratregion
5063046BE113619180164397592443976104Ratregion
5063132BF410396240164442123344421473Ratregion
5061580BF396733246164395317143953417Ratregion
5089067AU048935129164989174949891878Ratregion
5083065BF390733158164637105346371211Ratregion
5089237AU049036191164700884947009040Ratregion
5089513AU049200244164600300846003252Ratregion
5089681AU049300174164399621943996395Ratregion
5090707AU049912238164557211545572353Ratregion
5085120BQ195509188164458261144582799Ratregion
5082805BF390151163164427344744273610Ratregion
5086775BE114613173164654685146547024Ratregion
5081729AW434052191164643527646435467Ratregion
5085750BM390857192164508545445085646Ratregion
5505101Ptrh2112164787220347872314Ratregion
5506368Cdkn2aip543164453905144539594Ratregion
5500358GDB:315025270164973914549739415Ratregion
5501141PMC148819P9192164566450945664701Ratregion
5501293RH16017359164730898347309342Ratregion
Position Markers

Flank 1: (D16Mgh1)
Rat AssemblyChrPosition (strand)Source
GRCr81649,757,666 - 49,757,901 (+)Marker Load Pipeline
mRatBN7.21643,024,842 - 43,025,077 (+)MAPPER
Rnor_6.01645,905,097 - 45,905,331NCBI
Rnor_5.01645,651,035 - 45,651,269UniSTS
RGSC_v3.41646,137,355 - 46,137,590RGD
RGSC_v3.41646,137,356 - 46,137,590UniSTS
RGSC_v3.11646,137,430 - 46,137,665RGD
Celera1641,050,838 - 41,051,078UniSTS
RH 3.4 Map16395.6UniSTS
RH 3.4 Map16395.6RGD
RH 2.0 Map16419.5RGD
SHRSP x BN Map1612.35RGD
Cytogenetic Map16 RGD
Peak: (D16Mgh6)
Rat AssemblyChrPosition (strand)Source
mRatBN7.21645,868,397 - 45,868,497 (+)MAPPER
Rnor_6.01649,051,407 - 49,051,506NCBI
Rnor_5.01648,766,016 - 48,766,115UniSTS
RGSC_v3.41649,150,370 - 49,150,515RGD
RGSC_v3.41649,150,415 - 49,150,514UniSTS
RGSC_v3.11649,150,490 - 49,150,589RGD
RH 3.4 Map16448.0UniSTS
RH 3.4 Map16448.0RGD
RH 2.0 Map16447.5RGD
Flank 2: (D16Rat17)
Rat AssemblyChrPosition (strand)Source
GRCr81656,898,200 - 56,898,388 (+)Marker Load Pipeline
mRatBN7.21650,165,828 - 50,166,018 (+)MAPPER
Rnor_6.01653,253,168 - 53,253,355NCBI
Rnor_5.01652,968,461 - 52,968,648UniSTS
RGSC_v3.41653,486,003 - 53,486,191RGD
RGSC_v3.41653,486,004 - 53,486,191UniSTS
RGSC_v3.11653,485,861 - 53,486,309RGD
Celera1648,111,731 - 48,111,918UniSTS
RH 2.0 Map16592.6RGD
FHH x ACI Map1625.4898RGD


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)161900443575226532Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)163528887080288870Rat
2302057Pia29Pristane induced arthritis QTL 293.60.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)162173597566735975Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16422760946975965Rat
631833Sach2Saccharin preference QTL 240.01consumption behavior trait (VT:0002069)calculated saccharin drink intake rate (CMO:0001613)164302484250166018Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16144977551Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)162515279370152793Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)163775215682752156Rat
61338Bp23Blood pressure QTL 234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760949227609Rat
61405Niddm6Non-insulin dependent diabetes mellitus QTL 63.660.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)16422760948972724Rat
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)163775215682752156Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16144588133Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)16422760943025077Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760960252231Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164239634584729064Rat
8694453Bw172Body weight QTL 1728.330.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)162432551369325513Rat
1298529Arunc1Aerobic running capacity QTL 14exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)163195152060148445Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16338015043025077Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683223646053497Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16143534949Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat


Additional Information

Database Acc Id Source(s)
NCBI Gene Sach2

RGD Curation Notes
Note Type Note Reference
qtl_cross_type Intercross