Alc12 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL: Alc12 (Alcohol consumption QTL 12) Rattus norvegicus

Symbol: Alc12
Name: Alcohol consumption QTL 12
RGD ID: 737823
Previously known as: Eoh; Alcohol preference; Alcohol preference QTL 12
Trait: consumption behavior trait   (VT:0002069)    
Measurement Type: ethanol drink intake rate   (CMO:0001407)    
LOD Score: 4.5
P Value: Not Available
Variance: Not Available
Inheritance Type: additive
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21017,245,513 - 19,388,279RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.01017,555,386 - 19,743,866RGD_MAPPER_PIPELINERnor6.0
Rnor_5.01017,443,258 - 19,620,793RGDRnor5.0
RGSC_v3.41017,515,123 - 19,815,204RGDRGSC3.4
RGSC_v3.11017,516,172 - 19,816,253RGD
Cross Type: Intercross
Strains Crossed: HAD2 LAD2 
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

Experimental Condition

Measurement Method
scale  (IDA)

Vertebrate Trait

Rat Strain
HAD2  (IEA)
LAD2  (IEA)

References

References - curated
# Reference Title Reference Citation
1. Analyses of quantitative trait loci contributing to alcohol preference in HAD1/LAD1 and HAD2/LAD2 rats. Carr LG, etal., Alcohol Clin Exp Res 2003 Nov;27(11):1710-7.
2. QTLs influencing carbohydrate and fat choice in a LOU/CxFischer 344 F2 rat population. Marissal-Arvy N, etal., Obesity (Silver Spring). 2013 Apr 17. doi: 10.1002/oby.20485.
Related QTLs

Related QTL Description Reference
Alc10 interacts with RGD:731212
Alc9 interacts with RGD:731212
Alc11 interacts with RGD:731212
Alc4 interacts with RGD:731212
Alc13 interacts with RGD:731212
Foco17 maps to same region RGD:7401255
Alc6 interacts with RGD:731212
Alc5 maps to same region RGD:731212
Alc8 interacts with RGD:731212
Alc7 interacts with RGD:731212


Region

Genes in Region
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD IDSymbolNameChrStartStopSpecies
3192Npm1nucleophosmin 1101774151217751626Rat
2961Kcnmb1potassium calcium-activated channel subfamily M regulatory beta subunit 1101855751018614824Rat
70886Kcnip1potassium voltage-gated channel interacting protein 1101821951918588833Rat
619743Lcp2lymphocyte cytosolic protein 2101864260018689562Rat
620532Gabrpgamma-aminobutyric acid type A receptor subunit pi101814303118169595Rat
2608Fgf18fibroblast growth factor 18101770601117737702Rat
1307421Foxi1forkhead box I1101880629218810231Rat
1309121Fbxw11F-box and WD repeat domain containing 11101723273517330584Rat
1306908Spdl1spindle apparatus coiled-coil protein 1101926912519294213Rat
1306625Smim23small integral membrane protein 23101740345617407091Rat
1564189Dock2dedicator of cytokinesis 2101882723719244823Rat
1564190Tlx3T-cell leukemia, homeobox 3101778970617792207Rat
1564301Hdac1-ps15Histone deacetylase 1, pseudogene 15101934937419357532Rat
1564698RGD1564698similar to ribosomal protein S10101935774319360370Rat
1562576Ranbp17RAN binding protein 17101780040618102947Rat
2320105Insyn2binhibitory synaptic factor family member 2B101891672119023859Rat
7677559LOC102546482uncharacterized LOC102546482101775083317776457Rat
11397104LOC108352070uncharacterized LOC108352070101937624019413283Rat
11387328LOC108352198uncharacterized LOC108352198101810235218167503Rat
11411272C10H5orf58chromosome 10 open reading frame, human C5orf58101869095818697224Rat
11510400LOC108352172spindle and kinetochore-associated protein 2 pseudogene101808982118091927Rat
41378413LOC120095454small nucleolar RNA SNORA17101929970519299826Rat
41360376LOC120095064uncharacterized LOC120095064101750954717513271Rat
41097291LOC120095066uncharacterized LOC120095066101936236119369982Rat
41346304LOC120095245uncharacterized LOC120095245101833283518339900Rat
41184374LOC120095444small nucleolar RNA SNORA17101930121219301339Rat
41399483LOC120095065uncharacterized LOC120095065101920504919234280Rat
41377102LOC120095067uncharacterized LOC120095067101937092719404604Rat
41009470Rpl9-ps21ribosomal protein L9, pseudogene 21101761446917615127Rat
40996176LOC120095063uncharacterized LOC120095063101743648717451405Rat
41244293LOC120095246uncharacterized LOC120095246101811445818123027Rat
41303059LOC120095244uncharacterized LOC120095244101820318618223924Rat
41018573LOC120095061uncharacterized LOC120095061101724705617257621Rat

Markers in Region
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolExpected SizeChrStartStopSpeciesMatch
34084D10Mgh18196101792601517926223Ratregion
35012D10Rat46177101938810219388279Ratregion
39082D10Rat118131101923323519233348Ratregion
42907D10Rat217200101740062217400821Ratregion
41276D10Rat182151101724551317245662Ratregion
41524D10Rat180170101876880518768977Ratregion
40924D10Rat181130101743290617433034Ratregion
44704D10Got37256101804492518045181Ratregion
44705D10Got35192101801670818016901Ratregion
60753D10Wox3180101790711317907293Ratregion
62425D10Uia1224101876922318769447Ratregion
1636919D10Wox2194101790710317907297Ratregion
5034145RH141536162101868788018688042Ratregion
5031858AU046920163101828401318284176Ratregion
5032845RH136704182101798495917985141Ratregion
5027731RH70655214101935544519355668Ratregion
5055761RH143987108101902363319023741Ratregion
5052803RH142282170101733037817330548Ratregion
5052977RH142383176101856519318565369Ratregion
5075624RH138702161101896636418966525Ratregion
5076804RH139388110101926950319269613Ratregion
5071332RH135021164101796759417967758Ratregion
5065110BF40589491101839790118397992Ratregion
5064926BF399933172101820707818207250Ratregion
5089425AU049148180101736714817367324Ratregion
5088905AU048839261101876630618766567Ratregion
5084382AA849706195101821969918219894Ratregion
Position Markers

Flank 1: (D10Rat182)
Rat AssemblyChrPosition (strand)Source
mRatBN7.21017,245,513 - 17,245,662 (+)MAPPER
Rnor_6.01017,555,386 - 17,555,534NCBI
Rnor_5.01017,443,258 - 17,443,406UniSTS
RGSC_v3.41017,515,123 - 17,515,458RGD
RGSC_v3.41017,515,215 - 17,515,363UniSTS
RGSC_v3.11017,516,172 - 17,516,507RGD
Celera1016,890,021 - 16,890,169UniSTS
RH 2.0 Map10183.0RGD
SHRSP x BN Map1017.15RGD
Cytogenetic Map10q12UniSTS
Peak: (D10Rat180)
Rat AssemblyChrPosition (strand)Source
mRatBN7.21018,768,805 - 18,768,977 (+)MAPPER
Rnor_6.01019,123,112 - 19,123,283NCBI
Rnor_5.01019,001,598 - 19,001,769UniSTS
RGSC_v3.41019,148,316 - 19,148,638RGD
RGSC_v3.41019,148,436 - 19,148,607UniSTS
RGSC_v3.11019,149,365 - 19,149,687RGD
Celera1018,401,553 - 18,401,724UniSTS
RH 2.0 Map10206.6RGD
SHRSP x BN Map1019.38RGD
Flank 2: (D10Rat46)
Rat AssemblyChrPosition (strand)Source
mRatBN7.21019,388,102 - 19,388,279 (+)MAPPER
Rnor_6.01019,743,690 - 19,743,866NCBI
Rnor_5.01019,620,617 - 19,620,793UniSTS
RGSC_v3.41019,815,027 - 19,815,204RGD
RGSC_v3.41019,815,028 - 19,815,204UniSTS
RGSC_v3.11019,816,076 - 19,816,253RGD
Celera1019,017,983 - 19,018,182UniSTS
RH 2.0 Map10214.9RGD
SHRSP x BN Map1020.45RGD
Cytogenetic Map10q12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10124158324Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135225947Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
1576304Schws7Schwannoma susceptibility QTL 70.0115nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)10476552719816042Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402717245662Rat
737820Alc9Alcohol consumption QTL 92.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402719233348Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)10538701450387014Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
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
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101502851360430477Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101527595560275955Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
737823Alc12Alcohol consumption QTL 124.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)101724551319388279Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101790711351786432Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101816784163167841Rat


Additional Information

Database Acc Id Source(s)
NCBI Gene Alc12


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-04-14 Alc12  Alcohol consumption QTL 12    Alcohol preference QTL 12  Name updated 1299863 APPROVED

RGD Curation Notes
Note Type Note Reference
qtl_cross_pair HAD2xLAD2  
qtl_cross_type Intercross  
qtl_general crossing of replicate lines of HAD1 x LAD1 supported the existence of QTL phenotypes in this region 731212