Alc35 QTL Report (Rattus norvegicus) - Rat Genome Database
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QTL: Alc35 (Alcohol consumption QTL 35) Rattus norvegicus

Symbol: Alc35
Name: Alcohol consumption QTL 35
RGD ID: 8693690
Trait: drinking behavior trait   (VT:0001422)    
Measurement Type: calculated ethanol drink intake rate   (CMO:0001615)    
LOD Score: 2.2
P Value: 0.606
Variance: Not Available
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.069,974,277 - 22,477,622RGD_MAPPER_PIPELINERnor6.0
Rnor_5.069,884,460 - 32,363,317RGD_MAPPER_PIPELINERnor5.0
RGSC_v3.4610,098,192 - 21,268,437RGD_MAPPER_PIPELINERGSC3.4
Cross Type: Not Available
Strains Crossed: BXH/Ipcv HXB/Ipcv 
JBrowse: View Region in Genome Browser (JBrowse)
Model



Disease Annotations     Click to see Annotation Detail View

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
Experimental Data Annotations     Click to see Annotation Detail View

Clinical Measurement

Measurement Method
scale  (IDA)

Vertebrate Trait

Rat Strain
BXH/Ipcv  (IEA)
HXB/Ipcv  (IEA)

References

References - curated
1. Vanderlinden LA, etal., Alcohol Clin Exp Res. 2014 Jun 24. doi: 10.1111/acer.12471.

Region

Genes in Region
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD IDSymbolNameChrStartStopSpecies
68404Epas1endothelial PAS domain protein 161030650810385239Rat
2632Fshrfollicle stimulating hormone receptor61279638312997817Rat
68940Kcnk12potassium two pore domain channel subfamily K member 1261137391711494459Rat
628690Mcfd2multiple coagulation factor deficiency 2, ER cargo receptor complex subunit61088730310899221Rat
727935Fbxo11F-box protein 1161166235611737427Rat
3007Lhcgrluteinizing hormone/choriogonadotropin receptor61249318212554482Rat
621545CriptCXXC repeat containing interactor of PDZ3 domain61059414710602103Rat
621365Epcamepithelial cell adhesion molecule61128219411308870Rat
708575Dpy30dpy-30 histone methyltransferase complex regulatory subunit62229612822316894Rat
620507Crnkl1crooked neck pre-mRNA splicing factor 161834922618351540Rat
628659Nrxn1neurexin 161388675715191660Rat
68379Ltbp1latent transforming growth factor beta binding protein 162120350221600441Rat
620786Msh2mutS homolog 261121595111274916Rat
1304582Mtm1myotubularin 161882182118840449Rat
1304687Alkbh8alkB homolog 8, tRNA methyltransferase61887788518952773Rat
2258Calm2calmodulin 261106767511080078Rat
735178Eif3heukaryotic translation initiation factor 3, subunit H61015173210236677Rat
1304612Rasgrp3RAS guanyl releasing protein 362107263421171619Rat
621626Rhoqras homolog family member Q61053315110568582Rat
727878Ston1stonin 161233246512379783Rat
1309929Memo1mediator of cell motility 162236248322409583Rat
1307247Birc6baculoviral IAP repeat-containing 662190076322092484Rat
1308625Gtf2a1lgeneral transcription factor 2A subunit 1 like61241219812468613Rat
1560460LOC316717protein serine-threonine phosphatase catalytic subunit PP-1c61808894218090200Rat
1310083Cwf19l2CWF19 like cell cycle control factor 261897061619037176Rat
1309250Slc30a6solute carrier family 30 member 662219700322226364Rat
1309831Nlrc4NLR family, CARD domain containing 462216787422194755Rat
1310157Yipf4Yip1 domain family, member 462212687022138286Rat
1305486Fam98afamily with sequence similarity 98, member A62105132721065986Rat
1309234Uap1l2UDP-N-acteylglucosamine pyrophosphorylase 1-like 261775424817760364Rat
1305264Ttc27tetratricopeptide repeat domain 2762173583321880008Rat
1308494Spastspastin62223006722282166Rat
1306211Ttc7atetratricopeptide repeat domain 7A61091238311014279Rat
1564275RGD1564275similar to Zinc finger HIT domain containing protein 161860451518604951Rat
1311680Atp6v1e2ATPase H+ transporting V1 subunit E261051037010517059Rat
1334223Olr1844-psolfactory receptor pseudogene 184461666977016670518Rat
1562306RGD1562306similar to H2A histone family, member Z61185962211860016Rat
1583780Hspd1-ps11heat shock protein 1, pseudogene 1162044857920450778Rat
1564914Socs5suppressor of cytokine signaling 561067131110705610Rat
1584658Pigfphosphatidylinositol glycan anchor biosynthesis, class F61056584110593972Rat
1583779LOC366558similar to suppression of tumorigenicity 1362091378020915080Rat
1562291Foxn2forkhead box N261215812712205450Rat
1565310Ppp1r21protein phosphatase 1, regulatory subunit 2161225378812323427Rat
1591362LOC685651similar to ribosomal protein L18a62228406622284872Rat
1588160Tmem247transmembrane protein 24761048330810488255Rat
1583703LOC503014similar to ribosomal protein L3161158059511580965Rat
1583702LOC503015similar to L-lactate dehydrogenase A chain (LDH-A) (LDH muscle subunit) (LDH-M)62094851220949477Rat
1597093LOC366782similar to 60S ribosomal protein L761876852618769385Rat
1598336LOC301686similar to Glycogen [starch] synthase, muscle61547599015478206Rat
1598337LOC301683similar to Polypyrimidine tract-binding protein 1 (PTB) (Heterogeneous nuclear ribonucleoprotein I) (hnRNP I)61383464313836133Rat
1596478LOC685218similar to RRS1 ribosome biogenesis regulator homolog61878513218787785Rat
1591638Stpg4sperm-tail PG-rich repeat containing 461101459611063509Rat
1591317LOC685696similar to small nuclear ribonucleoprotein D262245710922457797Rat
1597710LOC685173similar to carbonic anhydrase 1361870877518717266Rat
2319303LOC100361875Egln1 protein-like61877046118771948Rat
2322311Msh6mutS homolog 661164456511662389Rat
2320894LOC100361066ubiquitin-conjugating enzyme E2E 1-like61801357118014309Rat
2321878LOC100360579nuclear cap binding protein subunit 2-like61215585012157893Rat
2324313LOC100362645Egam-1N-like61042294510426355Rat
4888601Mir3558microRNA 355861099269110992804Rat
2325084LOC100359644hypothetical LOC10035964461110434811104961Rat
2325125LOC100359600karyopherin alpha 2-like61064270510644673Rat
6495104LOC100911110eukaryotic translation initiation factor 3 subunit H-like61015172810236696Rat
6502562LOC100909597WW domain-containing adapter protein with coiled-coil-like61747778217542849Rat
6496868LOC100910710NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12-like61929977419301148Rat
6503465LOC100909413alpha-enolase-like61466598614668125Rat
6503641LOC100909448AP-2 complex subunit mu-like61466739214672392Rat
7521850LOC102550058uncharacterized LOC10255005861311253613185314Rat
7534510LOC102549561pyruvate kinase PKM-like61244080212443044Rat
7537420LOC102550908uncharacterized LOC10255090861459687014599498Rat
7516562LOC102552558xenotropic and polytropic retrovirus receptor 1-like61699915317048644Rat
7242712Crnkl1-ps1crooked neck pre-mRNA splicing factor 1, pseudogene 161834922618351540Rat
7613897LOC102550312uncharacterized LOC10255031261344714513462635Rat
7641963LOC102554832transmembrane protein 126A-like61901654519019635Rat
7548576LOC102555012uncharacterized LOC10255501261114873611153450Rat
7584786LOC102546644uncharacterized LOC10254664461221134112214372Rat
7695048LOC102549991uncharacterized LOC10254999161271705712718518Rat
7676249LOC10254928060S ribosomal protein L32-like62112426821135919Rat
7707848LOC102550556uncharacterized LOC10255055661449677114504794Rat
7723359LOC102553826uncharacterized LOC10255382661880272918821510Rat
7725660LOC102549671uncharacterized LOC10254967161258509012596211Rat
7666954LOC102550619polypyrimidine tract-binding protein 1-like61396740414012848Rat
7740587LOC102554743pantothenate kinase 3-like61892203618925972Rat
7697691LOC102546793uncharacterized LOC10254679362187239221874656Rat
7670248LOC102553135uncharacterized LOC10255313561796530617970792Rat
7702192LOC102550208uncharacterized LOC10255020861324227013288148Rat
9146338LOC103692557uncharacterized LOC10369255761161928211622269Rat
9183386LOC103692553uncharacterized LOC10369255361088818610888873Rat
9197316LOC103689957F-box only protein 11-like61142796811443265Rat
9086644LOC103692563uncharacterized LOC10369256362222645222246457Rat
9230730LOC103692559high mobility group protein B3 pseudogene61409786914099320Rat
9278183LOC103692555uncharacterized LOC10369255561121619811219819Rat
9290018LOC10369256060S ribosomal protein L10a pseudogene61429965714350180Rat
9255248LOC103692561uncharacterized LOC10369256161476162714783609Rat
9388783LOC103692554uncharacterized LOC10369255461114605311164614Rat
9406116LOC103692551uncharacterized LOC10369255161066929610671264Rat
9410951LOC103692558uncharacterized LOC10369255861232655312340593Rat
11449343LOC108351325proline--tRNA ligase-like61819355518194576Rat
11443157LOC108351172uncharacterized LOC10835117261109333411097719Rat
11470604LOC10835135640S ribosomal protein S18 pseudogene62162680921627252Rat
11366009LOC108351354MLV-related proviral Env polyprotein-like61381964613820258Rat
11447028LOC108351355uncharacterized LOC10835135561728393017287813Rat
11412449LOC108351324nuclear cap-binding protein subunit 2 pseudogene61207698712080327Rat
11419109LOC108351178uncharacterized LOC10835117862179714721799761Rat
11385383LOC108351176uncharacterized LOC10835117661575826115778363Rat
11390034LOC108351171uncharacterized LOC10835117161058969910590238Rat
11480265LOC108351174uncharacterized LOC10835117461329938313331224Rat
11480659LOC108351175uncharacterized LOC10835117561572614115767729Rat
11495481LOC108351326peptidyl-prolyl cis-trans isomerase D pseudogene61999149819992899Rat
11508425LOC108351177uncharacterized LOC10835117761651460716518933Rat
11482436LOC108351179uncharacterized LOC10835117962243460122511118Rat

Markers in Region
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolExpected SizeChrStartStopSpeciesMatch
33561D6Mit517561285662612856796Ratregion
36344D12Mit1012161790460417904724Ratregion
37298D6Rat10521561988810319888321Ratregion
37410D6Rat10717962069621520696387Ratregion
37496D6Rat10815061610012016100257Ratregion
35507D6Rat4317262113329221133468Ratregion
35541D6Rat4716261434914114349286Ratregion
37808D7Rat8612261017386210173981Ratregion
35134D6Rat4121062204285422043112Ratregion
35653D6Rat4214562116559121165729Ratregion
35683D6Rat3913862151530221515439Ratregion
35963D6Rat4614461312295813123101Ratregion
39622D6Rat15114961448552514485679Ratregion
40624D6Rat14824662207016822070417Ratregion
38724D6Rat8622462069916920699402Ratregion
42771D6Rat21312161210411912104215Ratregion
42776D6Rat20914962209572922095901Ratregion
42777D6Rat17246562212878222129258Ratregion
42321D6Rat21224961473831514738548Ratregion
44025D6Got20418862209748822097675Ratregion
44027D6Got918562116069121160875Ratregion
60811D6Wox1631061024169210242005Ratregion
67772D5Uwm314161115095011151587Ratregion
1631647D6Got515961200482912004987Ratregion
1632009D6Got32211061108314111083250Ratregion
1627875D6Got31710762130250321302609Ratregion
1629641D6Got30011062143400221434106Ratregion
1640865D6Cebr324361078552610785768Ratregion
1640899D6Got32926361295217512952437Ratregion
1633593D6Wox3216661128224311282408Ratregion
8693211rs10743500361222991812229918Ratregion
8693213rs10684487661357229613572296Ratregion
5036845AU04939424962083770520837953Ratregion
5031418AU04838817562209747922097653Ratregion
5034117RH14142721561060176210601976Ratregion
5034530BE119146186699743279974512Ratregion
5024970AU02287420661834971018349915Ratregion
5025072RH12687218561346206913462267Ratregion
5025152RH12679021661166237811662593Ratregion
5030421BI28843317961038560010385778Ratregion
8693417rs6488695762247762222477622Ratregion
5025690RH12928318261038702510387206Ratregion
5025760RH12955518062231659122316770Ratregion
5051591AW55027911461166169611661809Ratregion
5055129RH14362228761834949218349778Ratregion
5056477RH14440126762202279722023063Ratregion
5055333RH14374117462230121522301388Ratregion
5050148RH13388918262107289621073077Ratregion
5051148RH13446720661238141012381615Ratregion
5054673RH14335914961405520414055352Ratregion
5041606RH12895418561883951418839698Ratregion
5046552RH13181918761116437711164563Ratregion
5045156RH13101621061094133710941546Ratregion
5039520RH12775320861166111011661816Ratregion
5039556RH12777321761101393811014154Ratregion
5048586RH13298919862223051622230713Ratregion
5048600RH13299718161059674810596928Ratregion
5039546RH12776720362241484322415045Ratregion
5041038RH12862720861088738510887592Ratregion
5043852RH13026519062173586921736058Ratregion
5075206RH13846024961249254112492789Ratregion
5074006RH13776515061106487711065026Ratregion
5075566RH13866714661060115810601303Ratregion
5076820RH1393979362223123322231325Ratregion
5078718RH14051118061166261411662793Ratregion
5080042RH14134918462120372821203911Ratregion
8693337rs13452788699742779974277Ratregion
5067848AU04749923362050483420505066Ratregion
5068434AU04714715261923881319238964Ratregion
5069576AU04640523561299871212998946Ratregion
5063516BF40430610262239698422397085Ratregion
5062738AW53414518161053177210531952Ratregion
5065950AA92506415762240929222409448Ratregion
5064428BI30219017961928887219289050Ratregion
5087400FSHR30461279686712797170Ratregion
5087854AA43797213661775986917760004Ratregion
5088979AU04888221261854887818549089Ratregion
5083593BE10078211162120365621203766Ratregion
5080766RH14176919261056714810567339Ratregion
5081162RH14200019061516682715167016Ratregion
5081218RH142033218699759669976183Ratregion
5502965LHCGR49361249425412494746Ratregion
5503274UniSTS:23769822562106557221065796Ratregion
5506389UniSTS:47908653961834939918349937Ratregion
5506229Epas19561035974210359836Ratregion
5500505RH12659020162245743022457627Ratregion
5500509RH12691424962231657022316818Ratregion
5501558D11S4187137861247241812473795Ratregion
Position Markers

Flank 1: (rs13452788)
Rat AssemblyChrPosition (strand)Source
Rnor_6.069,974,277 - 9,974,277RGD
Rnor_5.069,884,460 - 9,884,460RGD
RGSC_v3.4610,098,192 - 10,098,192RGD
Celera67,695,280 - 7,695,280RGD
Peak: (rs107435003)
Rat AssemblyChrPosition (strand)Source
Rnor_6.0612,229,918 - 12,229,918RGD
Rnor_5.0622,195,243 - 22,195,243RGD
RGSC_v3.4612,306,881 - 12,306,881RGD
Celera65,764,579 - 5,764,579RGD
Flank 2: (rs64886957)
Rat AssemblyChrPosition (strand)Source
Rnor_6.0622,477,622 - 22,477,622RGD
Rnor_5.0632,363,317 - 32,363,317RGD
RGSC_v3.4621,268,437 - 21,268,437RGD
Celera620,857,956 - 20,857,956RGD


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598843Cm63Cardiac mass QTL 632.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)6123620518Rat
1578758Tcas9Tongue tumor susceptibility QTL 93.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)6125048718Rat
738023Alc17Alcohol consumption QTL 173.10.003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)6135623029Rat
1354616Despr12Despair related QTL 120.0012locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)6135623029Rat
1549905Stresp10Stress response QTL 106.830.0066stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)6135623029Rat
2300176Bmd51Bone mineral density QTL 5111.70.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)6135623029Rat
2300190Bmd52Bone mineral density QTL 5211.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)6135623029Rat
1331743Uae28Urinary albumin excretion QTL 284.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)6141917988Rat
9589048Scfw3Subcutaneous fat weight QTL 34.570.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)6142388212Rat
9589129Insul24Insulin level QTL 2419.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)6142388212Rat
7411603Foco13Food consumption QTL 135.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6142388212Rat
7411542Bw127Body weight QTL 1275.50.001body mass (VT:0001259)body weight gain (CMO:0000420)6142388212Rat
8552962Pigfal16Plasma insulin-like growth factor 1 level QTL 169.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)6142388212Rat
2293709Bss23Bone structure and strength QTL 235.180.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)6143665660Rat
2293650Bss31Bone structure and strength QTL 315.050.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)6143665660Rat
2293656Bss28Bone structure and strength QTL 286.790.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)6143665660Rat
7411584Foco4Food consumption QTL 44.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6144015370Rat
738024Sach5Saccharine consumption QTL 53.90.00039consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)6144570292Rat
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6175623393Rat
8693645Alc31Alcohol consumption QTL 313.70.038drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)613505323600274Rat
1359023Bp272Blood pressure QTL 2722.5arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)6112039328706721Rat
2292589Emca10Estrogen-induced mammary cancer QTL 100.048mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)6112039346120393Rat
1354664Slep2Serum leptin concentration QTL 24.49blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)6112039375023446Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)62537030111715717Rat
1578665Bss16Bone structure and strength QTL 164.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)6616172276002731Rat
1578668Bmd14Bone mineral density QTL 143.8femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)6616172276002731Rat
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)percentage of deaths in a study population during a period of time (CMO:0001024)67009971115379601Rat
1358190Ept1Estrogen-induced pituitary tumorigenesis QTL 14.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)6808322221515439Rat
2292616Ept15Estrogen-induced pituitary tumorigenesis QTL 154.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)6808322221515439Rat
8693699Alc37Alcohol consumption QTL 372.60.224drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)6997427722477622Rat
8693690Alc35Alcohol consumption QTL 352.20.606drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)6997427722477622Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)71017386255173862Rat
2293706Bmd20Bone mineral density QTL 204.30.0002femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)61312295821165729Rat
1300128Rf16Renal function QTL 163.89renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)61312295834367603Rat
1300164Rf15Renal function QTL 153.12renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)61312295857516539Rat
10401812Kidm54Kidney mass QTL 54kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)61681010761810107Rat
10401800Kidm49Kidney mass QTL 49kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)61681010761810107Rat
8552910Pigfal5Plasma insulin-like growth factor 1 level QTL 54.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)61941788764417887Rat
1641898Colcr4Colorectal carcinoma resistance QTL43.710.0007intestine integrity trait (VT:0010554)well differentiated malignant colorectal tumor surface area measurement (CMO:0002077)62151530265784818Rat
2293839Kiddil2Kidney dilation QTL 24.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62204285484763421Rat
2293841Kiddil4Kidney dilation QTL 44.4kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62204285484763421Rat


Additional Information

RGD Curation Notes
Note Type Note Reference
qtl_general measurement method: rats were given 10% EtOH for 1 week, then for 7 weeks they were given 2-bottle choice of water and EtOH followed by 2 week period of only water (alcohol deprivation); then 2 weeks of 2-bottle choice of water and EtOH followed by second 2 weeks of alcohol deprivation then 2 weeks of 2-bottle choice of water and EtOH followed by third 2 weeks of alcohol deprivation and 1 week of 2-bottle choice of water and EtOH 8663441
qtl_general water and alcohol consumption were measured by weight 8663441
qtl_general alcohol deprivation effect (ADE) was calculated as the amount of alcohol consumed (g/kg) during 24 hrs after deprivation minus average daily amount consumed in the week before deprivation period 8663441
qtl_general this QTL correlates to week 11 post-ADE alcohol consumption 8663441
qtl_general software used: ANOVA 8663441
qtl_general number of animals used: 70-100 days old males from HXB/BXH RI strains and the parental BN-Lx/CubPrin, SHR/OlaIpcvPrin 8663441
qtl_general spans 12.2-32.2 Mb 8663441