Scl71 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Scl71 (Serum cholesterol level QTL 71) Rattus norvegicus

Symbol: Scl71
Name: Serum cholesterol level QTL 71
RGD ID: 10450806
Previously known as: f8-C (large LDL)
Trait: blood LDL cholesterol amount   (VT:0000181)    
Measurement Type: blood low density lipoprotein cholesterol level   (CMO:0000053)    
LOD Score: 5.8
P Value: 0.001
Variance: 39.0
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr832,904,329 - 47,904,329RGD_MAPPER_PIPELINE
mRatBN7.2324,192,455 - 27,494,778RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.0324,772,984 - 28,136,884RGD_MAPPER_PIPELINERnor6.0
Rnor_5.0329,989,957 - 33,340,453RGD_MAPPER_PIPELINERnor5.0
RGSC_v3.4320,341,140 - 23,762,628RGD_MAPPER_PIPELINERGSC3.4
Cross Type: Not Available
Strains Crossed: SHR.BN-(D8Mit5-D8Mgh6)/Ipcv BXH2/Cub 
JBrowse: View Region in Genome Browser (JBrowse)
Model




  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scl71Ratatherosclerosis  IAGP 10402111 RGD 

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scl71Ratincreased circulating LDL cholesterol level  IDA 10402111 RGD 

Clinical Measurement
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scl71Ratblood low density lipoprotein cholesterol level  IDA 10402111 RGD 

Experimental Condition
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scl71Ratcontrolled fat content diet  IDA 10402111 RGD 
Scl71Ratcontrolled protein content diet  IDA 10402111 RGD 
Scl71Ratcontrolled sucrose content diet  IDA 10402111 RGD 
Scl71Ratfasting  IDA 10402111 RGD 

Measurement Method
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scl71Rathigh-performance liquid chromatography  IDA 10402111 RGD 

Rat Strain
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scl71RatBXH2/Cub  IEA 10402111 RGD 
Scl71RatSHR.BN-(D8Mit5-D8Mgh6)/Ipcv  IEA 10402111 RGD 

Vertebrate Trait
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Scl71Ratblood LDL cholesterol amount  IDA 10402111 RGD 


#
Reference Title
Reference Citation
1. Genomic determinants of triglyceride and cholesterol distribution into lipoprotein fractions in the rat. Hodulova M, etal., PLoS One. 2014 Oct 8;9(10):e109983. doi: 10.1371/journal.pone.0109983. eCollection 2014.


The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD ID
Symbol
Name
Chr
Start
Stop
Species
11496785LOC10835055160S ribosomal protein L12 pseudogene32424981424250522Rat
41069797LOC120102003small nucleolar RNA SNORA7032455500324555138Rat
1561736Rpl10l3ribosomal protein L10A like 332455508024555585Rat
1306160Lrp1bLDL receptor related protein 1B32459430226715037Rat
41034676Actg1-ps7actin, gamma 1, pseudogene 732528326925290132Rat
41092566LOC120101541uncharacterized LOC12010154132689036826909301Rat
41393928LOC120102048small nucleolar RNA SNORA1732689649926896629Rat
41260220LOC120101542MLV-related proviral Env polyprotein-like32733382827335839Rat

1 to 9 of 9 rows
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Expected Size
Chr
Start
Stop
Species
Match
37010D3Rat4915732749462127494778Ratregion
60385D3Got17521932419245524192674Ratregion
66449D3Mco1626132501365025013911Ratregion
5031023BE12111215132616782126167972Ratregion
5075148RH13842619032519428725194478Ratregion
5074814RH13823318832634165826341846Ratregion
8693334rs106929875032451200424512004Ratregion
5504044px-43d224632447248124472727Ratregion
5499587At-9B-134114132445043524451577Ratregion
1 to 9 of 9 rows

Flank 1: (D3Got175)
Rat AssemblyChrPosition (strand)Source
mRatBN7.2324,192,455 - 24,192,674 (+)MAPPER
Rnor_6.0324,772,984 - 24,773,202NCBI
Rnor_5.0329,989,957 - 29,990,175UniSTS
RGSC_v3.4320,341,140 - 20,341,358UniSTS
RGSC_v3.4320,341,140 - 20,341,358RGD
RGSC_v3.1320,237,512 - 20,237,730RGD
Celera322,606,209 - 22,606,427UniSTS
RH 3.4 Map3257.6UniSTS
RH 3.4 Map3257.6RGD
Cytogenetic Map3q11UniSTS
Flank 2: (D3Rat49)
Rat AssemblyChrPosition (strand)Source
GRCr8347,904,172 - 47,904,329 (+)Marker Load Pipeline
mRatBN7.2327,494,621 - 27,494,778 (+)MAPPER
Rnor_6.0328,136,728 - 28,136,884NCBI
Rnor_5.0333,340,297 - 33,340,453UniSTS
RGSC_v3.4323,762,471 - 23,762,628RGD
RGSC_v3.4323,762,472 - 23,762,628UniSTS
RGSC_v3.1323,658,844 - 23,659,000RGD
Celera325,815,457 - 25,815,613UniSTS
RH 3.4 Map3295.7UniSTS
RH 3.4 Map3295.7RGD
SHRSP x BN Map312.0598UniSTS
SHRSP x BN Map312.0598RGD


1 to 10 of 47 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
1358357Srcrtb1Stress Responsive Cort Basal QTL 16.360.002blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)3865816227494778Rat
6893355Bw101Body weight QTL 1010.40.38body mass (VT:0001259)body weight (CMO:0000012)31077870430357018Rat
1298073Cm13Cardiac mass QTL 132.5heart mass (VT:0007028)heart wet weight (CMO:0000069)32501391138192233Rat
634306Bp140Blood pressure QTL 1403.30.0013arterial blood pressure trait (VT:2000000)body weight (CMO:0000012)31737470335528639Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3822719447233430Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)3822719433703538Rat
8693641Alc30Alcohol consumption QTL 3020.739drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)31043430624512004Rat
2298542Neuinf11Neuroinflammation QTL 113.9nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)31500542276927699Rat
631832Sach1Saccharin preference QTL 12.70.02consumption behavior trait (VT:0002069)calculated saccharin drink intake volume (CMO:0001600)32749462144188411Rat
2313079Bss73Bone structure and strength QTL 731.5tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)32749462150302886Rat

1 to 10 of 47 rows


Note Type Note Reference
qtl_general number of animals used: 8-13 males, 4 month old from 15 PXO recombinant inbred strains 10402111
qtl_general software used: STATISTICA 10 CZ; ANOVA 10402111
qtl_general measurement method: 4 month old male rats were fed high-sucrose diet for 1 week; blood samples were taken from the tail vein after overnight fasting, lipoprotein fractions were determined by HPLC 10402111
qtl_general confidence interval: 20,496-22,532 Kbp 10402111
qtl_general 1 gene is present in this region 10402111
qtl_general 8th fraction of large LDL 10402111