Scl34 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Scl34 (Serum cholesterol QTL 34) Rattus norvegicus

Symbol: Scl34
Name: Serum cholesterol QTL 34
RGD ID: 6903303
Trait: blood cholesterol amount   (VT:0000180)    
Measurement Type: plasma total cholesterol level   (CMO:0000585)    
LOD Score: 2.5
P Value: 0.0033
Variance: Not Available
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81173,363,824 - 227,535,316RGD_MAPPER_PIPELINE
mRatBN7.21180,359,209 - 218,108,781RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.01197,187,728 - 238,220,385RGD_MAPPER_PIPELINERnor6.0
Rnor_5.01204,172,176 - 245,519,018RGDRnor5.0
RGSC_v3.41184,857,716 - 223,729,371RGDRGSC3.4
Cross Type: Not Available
Strains Crossed: LEW HTG 
JBrowse: View Region in Genome Browser (JBrowse)
Model




  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scl34RatHypercholesterolemia  IAGP 1299960 RGD 
Scl34RatMetabolic Syndrome  IAGP 1299960 RGD 

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scl34Ratincreased circulating cholesterol level  IDA 1299960 RGD 

Clinical Measurement
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scl34Ratplasma total cholesterol level  IDA 1299960 RGD 

Experimental Condition
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scl34Ratcontrol condition  IDA 1299960 RGD 

Measurement Method
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scl34Ratplasma total cholesterol measurement test  IDA 1299960 RGD 

Rat Strain
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scl34RatHTG  IEA 1299960 RGD 
Scl34RatLEW  IEA 1299960 RGD 

Vertebrate Trait
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scl34Ratblood cholesterol amount  IDA 1299960 RGD 


#
Reference Title
Reference Citation
1. Rat model of familial combined hyperlipidemia as a result of comparative mapping. Ueno T, etal., Physiol Genomics 2004 Mar 12;17(1):38-47. Epub 2004 Jan 6.


1 to 20 of 972 rows
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD ID
Symbol
Name
Chr
Start
Stop
Species
1595846Katnipkatanin interacting protein1180270194180436766Rat
1562278Gsg1lGSG1-like1180440398180654342Rat
1311491Xpo6exportin 61180672114180761543Rat
11508576LOC108349639uncharacterized LOC1083496391180764861180777765Rat
41179471LOC120099931uncharacterized LOC1200999311180777618180793202Rat
11478799LOC108349640uncharacterized LOC1083496401180783169180807007Rat
628713Sbk1SH3 domain binding kinase 11180807092180851910Rat
7541351LOC102548820uncharacterized LOC1025488201180906441180915707Rat
620802Latlinker for activation of T cells1180936536180941561Rat
1305613Spns1SPNS lysolipid transporter 1, lysophospholipid1180942088180949415Rat
1359096Nfatc2ipnuclear factor of activated T-cells 2 interacting protein1180954834180971847Rat
2320900Rpl36l3ribosomal protein L36 like 31180985733180986204Rat
1309086Cd19CD19 molecule1180987286180993920Rat
621416Rabep2rabaptin, RAB GTPase binding effector protein 21181010305181026651Rat
621293Atp2a1ATPase sarcoplasmic/endoplasmic reticulum Ca2+ transporting 11181026606181044859Rat
620132Sh2b1SH2B adaptor protein 11181048622181057036Rat
1305501TufmTu translation elongation factor, mitochondrial1181073788181077395Rat
1565868Atxn2lataxin 2-like1181078293181090079Rat
3118Mt1-ps1metallothionein 1, pseudogene 11181132896181133270Rat
1308871Eif3ceukaryotic translation initiation factor 3, subunit C1181134604181152489Rat

1 to 20 of 972 rows
1 to 20 of 1236 rows
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Expected Size
Chr
Start
Stop
Species
Match
10138D1Arb191891181406902181407091Ratregion
10450D1Smu42401195841852195842092Ratregion
10580D1Smu52121184740646184740858Ratregion
10699D1Wox361451201337534201337679Ratregion
10768D1Wox221301197816378197816499Ratregion
10769D1Arb242651197816307197816572Ratregion
10818D1Smu101271182657959182658086Ratregion
10923D1Wox191551181133855181134010Ratregion
10951D1Mit133431181829673181830018Ratregion
10952D1Wox211041181829824181829932Ratregion
10953D1Arb183801181829744181830126Ratregion
10954D1Wox321901181829796181829988Ratregion
11060D1Wox231981206329708206330200Ratregion
11060D1Wox231981206330002206330200Ratregion
11060D1Wox231981206468994206469032Ratregion
11179D1Arb393281206497320206497652Ratregion
11179D1Arb393281206497320206497652Ratregion
33878D1Mit271951198211513198211706Ratregion
34021D1Mit282131193422268193422481Ratregion
34244D1Mgh101281199050459199050587Ratregion
1 to 20 of 1236 rows

Flank 1: (D1Rat64)
Rat AssemblyChrPosition (strand)Source
mRatBN7.21180,359,209 - 180,359,386 (+)MAPPER
Rnor_6.01197,187,728 - 197,187,904NCBI
Rnor_5.01204,172,176 - 204,172,352UniSTS
RGSC_v3.41184,857,716 - 184,857,893RGD
RGSC_v3.41184,857,717 - 184,857,893UniSTS
RGSC_v3.11185,007,598 - 185,007,774RGD
Celera1178,028,139 - 178,028,315UniSTS
SHRSP x BN Map190.2799UniSTS
SHRSP x BN Map190.2799RGD
FHH x ACI Map186.55RGD
Cytogenetic Map1q36UniSTS
Peak: (D1Rat208)
Rat AssemblyChrPosition (strand)Source
GRCr81200,449,456 - 200,449,685 (+)Marker Load Pipeline
mRatBN7.21191,019,702 - 191,019,931 (+)MAPPER
Rnor_6.01208,517,798 - 208,518,026NCBI
Rnor_5.01215,445,861 - 215,446,089UniSTS
RGSC_v3.41195,927,909 - 195,928,137UniSTS
RGSC_v3.41195,927,908 - 195,928,137RGD
RGSC_v3.11196,077,900 - 196,078,129RGD
Celera1188,728,910 - 188,729,138UniSTS
RH 3.4 Map11430.1RGD
RH 3.4 Map11430.1UniSTS
RH 2.0 Map11025.2RGD
SHRSP x BN Map199.2799RGD
FHH x ACI Map191.06RGD
Flank 2: (D1Rat123)
Rat AssemblyChrPosition (strand)Source
GRCr81227,535,119 - 227,535,316 (+)Marker Load Pipeline
mRatBN7.21218,108,584 - 218,108,781 (+)MAPPER
Rnor_6.01238,220,189 - 238,220,385NCBI
Rnor_5.01245,518,822 - 245,519,018UniSTS
RGSC_v3.41223,729,174 - 223,729,371RGD
RGSC_v3.41223,729,175 - 223,729,371UniSTS
RGSC_v3.11223,893,198 - 223,893,394RGD
Celera1215,376,705 - 215,376,901UniSTS
RH 3.4 Map9757.8UniSTS
RH 3.4 Map9757.8RGD
SHRSP x BN Map1116.5799UniSTS
SHRSP x BN Map1116.5799RGD
FHH x ACI Map1106.87RGD


1 to 10 of 151 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
8693637Alc29Alcohol consumption QTL 292.70.258drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)1207987464234238494Rat
1578778Pur4Proteinuria QTL 43.30.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1150700247252085048Rat
1357335Bw39Body weight QTL 393.3body mass (VT:0001259)body weight (CMO:0000012)1197814409242814409Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
1578770Stresp23Stress response QTL 23kidney sympathetic nerve activity (VT:0004050)stimulated renal sympathetic nerve activity to basal renal sympathetic nerve activity ratio (CMO:0001786)1123350408182418476Rat
61455Niddm7Non-insulin dependent diabetes mellitus QTL 75.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1214537555238757011Rat
1302787Stl25Serum triglyceride level QTL 252.70.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)1180359209210702199Rat
70160Bw18Body weight QTL 185.7body mass (VT:0001259)body weight (CMO:0000012)1144267353196383668Rat
1549830Bss1Bone structure and strength QTL 14.8femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1172609619217609619Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat

1 to 10 of 151 rows


Note Type Note Reference
qtl_general number of animals used: 5-6 months old 137 F2 male rats 1299960
qtl_general measurement method: polyethylene catheters were inserted in the carotid artery and blood was drawn 1299960
qtl_general software used: one-way analysis of variance (ANOVA) 1299960