Scl11 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Scl11 (Serum cholesterol level QTL 11) Rattus norvegicus

Symbol: Scl11
Name: Serum cholesterol level QTL 11
RGD ID: 631528
Trait: blood cholesterol amount   (VT:0000180)    
Measurement Type: blood total cholesterol level   (CMO:0000051)    
LOD Score: 4.9
P Value: Not Available
Variance: Not Available
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21417,573,412 - 19,726,296RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.01419,159,919 - 38,289,187RGD_MAPPER_PIPELINERnor6.0
Rnor_5.01419,067,260 - 38,099,442RGDRnor5.0
RGSC_v3.41419,110,728 - 38,152,541RGDRGSC3.4
RGSC_v3.11419,110,728 - 38,158,382RGD
Cross Type: backcross
Strains Crossed: SHR/Mol Wild/K 
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

Vertebrate Trait

Rat Strain
SHR/Mol  (IEA)
Wild/K  (IEA)

References

References - curated
# Reference Title Reference Citation
1. Quantitative trait loci for body weight, blood pressure, blood glucose, and serum lipids: linkage analysis with wild rats (Rattus norvegicus). Kloting I, etal., Biochem Biophys Res Commun 2001 Jun 29;284(5):1126-33.

Region

Genes in Region
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD IDSymbolNameChrStartStopSpecies
2065Afpalpha-fetoprotein141757341217591476Rat
2085Albalbumin141760739717622814Rat
2101Ambnameloblastin141960176119614382Rat
620667Dckdeoxycytidine kinase141930521819326247Rat
2667GcGC, vitamin D binding protein141863214618667563Rat
620168Npffr2neuropeptide FF receptor 2141851327718521919Rat
620983Oprpnopiorphin prepropeptide141970253519717550Rat
68936Slc4a4solute carrier family 4 member 4141884128919293297Rat
1305114Mob1bMOB kinase activator 1B141933305819365845Rat
1308540Utp3UTP3, small subunit processome component141951571619517370Rat
1310750Adamts3ADAM metallopeptidase with thrombospondin type 1, motif 3141823105118437773Rat
1310858Grsf1G-rich RNA sequence binding factor 1141941294419429364Rat
1310155Jchainjoining chain of multimeric IgA and IgM141953856019546384Rat
1306796Enamenamelin141955672919581433Rat
1561381RGD1561381similar to microsomal glutathione S-transferase 3141952550919526128Rat
1562348Ankrd17ankyrin repeat domain 17141772323917862625Rat
1559547Cox18cytochrome c oxidase assembly factor COX18141786458117877483Rat
1565242Rufy3RUN and FYVE domain containing 3141943153019506531Rat
1592356Amtnamelotin141964862419661181Rat
1597130Rpl8-ps4ribosomal protein L8, pseudogene 4141769362617694361Rat
7489037Mir6321microRNA 6321141945931719459457Rat
41281688LOC120096803small nucleolar RNA SNORA17141816018618160317Rat
40949335Srp19-ps1signal recognition particle 19, pseudogene 1141876858218769192Rat
40975998LOC120096832small nucleolar RNA SNORA76141963029219630423Rat
41015304LOC120096809small nucleolar RNA SNORA17141839961018399737Rat
40992817LOC120096583uncharacterized LOC120096583141846781518488097Rat
41227516LOC120096802small nucleolar RNA SNORA17141828413118284262Rat

Markers in Region
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolExpected SizeChrStartStopSpeciesMatch
10113D14Mit2194141759357517593761Ratregion
10135D14Wox11135141762256217622685Ratregion
10622D14Mgh3120141863134518631470Ratregion
10623D14Wox12194141864404318644232Ratregion
33551D14Mit6191141827449818274691Ratregion
41992D14Arb17190141864401218644233Ratregion
41998D14Arb4246141762249617622741Ratregion
42390D14Rat143119141821258418212709Ratregion
41690D14Rat102200141817462718174822Ratregion
45163D14Got25175141797429517974470Ratregion
45164D14Got26138141815274618152886Ratregion
60762D14Wox10100141762256117622640Ratregion
60059D14Got2791141880112418801217Ratregion
60060D14Got28169141880108718801258Ratregion
60061D14Got30283141964900219649280Ratregion
738059D14Hmgc3144141773143117731575Ratregion
1633391D14Got130171141797433417974505Ratregion
5035881PMC275467P5941141757579717576738Ratregion
5038634BB23255183141942923919429322Ratregion
5039006RH127459183141786069517860878Ratregion
7206204Afp165141757449317575848Ratregion
5035130BE096355184141934132219341506Ratregion
5032369C87704114141951584719515961Ratregion
5027295C80280115141942893519429050Ratregion
5027297AW557551132141951594119516073Ratregion
5056659RH144506104141850554418505648Ratregion
5059482BI291183150141780692017807070Ratregion
5059996BI285802182141757344517574505Ratregion
5058372BG376722142141943274319432885Ratregion
5051260RH134531183141944156919441752Ratregion
5046266RH131654202141943190719432110Ratregion
5047872RH132577182141787728617877468Ratregion
5049022RH133241198141933259419332792Ratregion
5049072RH133270180141954605019546230Ratregion
5047124RH132147209141942884419429053Ratregion
5048378RH132869186141932924219329428Ratregion
5048406RH132885212141944121219441424Ratregion
5080098RH141381185141930666019306840Ratregion
5061802AW52704392141902398119024073Ratregion
5070205RH94533106141757342917573535Ratregion
5062318BE106508190141951573519515925Ratregion
5062824BI295036136141948864119488777Ratregion
5087526PMC275467P2208141762278117622989Ratregion
5086425AW529895205141943559819435803Ratregion
5085850AI231703161141932426119324422Ratregion
5084530AI176955135141884474318844878Ratregion
5085228AI598408157141775846017758617Ratregion
5085274AI176044198141930715719307352Ratregion
5507587Alb1128141762198717622819Ratregion
5503611UniSTS:465369103141761092417611027Ratregion
5504799UniSTS:275850174141757456717575931Ratregion
5506869G46840210141906187019062080Ratregion
5499889UniSTS:235209266141951580719516073Ratregion
5502361RH124614257141786153317861790Ratregion
5503412G34499109141784556517845674Ratregion
5504734PMC86057P4438141762292017623358Ratregion
5502627RH125924233141876873218768964Ratregion
Position Markers

Flank 1: (D14Wox4)
Rat AssemblyChrPosition (strand)Source
Rnor_6.01438,289,187 - 38,289,371NCBI
Rnor_5.01438,099,442 - 38,099,626UniSTS
RGSC_v3.41438,152,541 - 38,152,726RGD
RGSC_v3.41438,152,542 - 38,152,726UniSTS
RGSC_v3.11438,158,382 - 38,158,567RGD
Celera1434,967,653 - 34,967,837UniSTS
Cytogenetic Map14p11UniSTS
Peak: (Gc)
Rat AssemblyChrPosition (strand)Source
mRatBN7.21418,632,146 - 18,667,563 (+)NCBI
mRatBN7.2 Ensembl1418,632,135 - 18,667,567 (+)Ensembl
UTH_Rnor_SHR_Utx1418,622,611 - 18,658,030 (+)NCBI
UTH_Rnor_SHRSP_BbbUtx_1.01419,941,501 - 19,976,920 (+)NCBI
UTH_Rnor_WKY_Bbb_1.01418,653,131 - 18,688,560 (+)NCBI
Rnor_6.01420,267,023 - 20,302,577 (+)NCBI
Rnor_6.0 Ensembl1420,266,891 - 20,302,581 (+)Ensembl
Rnor_5.01420,173,467 - 20,209,021 (+)NCBI
RGSC_v3.41420,166,243 - 20,197,060 (+)NCBI
RGSC_v3.11420,166,180 - 20,201,613 (+)NCBI
Celera1417,992,337 - 18,027,605 (+)NCBI
Cytogenetic Map14p22NCBI
Flank 2: (Afp)
Rat AssemblyChrPosition (strand)Source
mRatBN7.21417,573,412 - 17,591,476 (-)NCBI
mRatBN7.2 Ensembl1417,573,412 - 17,591,480 (-)Ensembl
UTH_Rnor_SHR_Utx1417,559,718 - 17,577,743 (-)NCBI
UTH_Rnor_SHRSP_BbbUtx_1.01418,878,645 - 18,896,663 (-)NCBI
UTH_Rnor_WKY_Bbb_1.01417,577,705 - 17,595,633 (-)NCBI
Rnor_6.01419,141,755 - 19,159,919 (-)NCBI
Rnor_6.0 Ensembl1419,141,755 - 19,159,923 (-)Ensembl
Rnor_5.01419,049,096 - 19,067,260 (-)NCBI
RGSC_v3.41419,092,563 - 19,110,728 (-)NCBI
RGSC_v3.11419,092,562 - 19,110,728 (-)NCBI
Celera1416,939,827 - 16,957,879 (-)NCBI
RH 3.4 Map14214.49RGD
Cytogenetic Map14p22NCBI


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300159Bmd61Bone mineral density QTL 615.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
2300183Bmd60Bone mineral density QTL 605.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
619619Rf4Renal disease susceptibility QTL 44.10.002urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14132754612Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141131407Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)14381307418274691Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)14381307418274691Rat
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14381307421217635Rat
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14381307424531477Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14381307430767156Rat
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14817066868298175Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14826709053267090Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14826709053267090Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14908897839057237Rat
2302277Gluco38Glucose level QTL 385.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062228035204Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
631212Bw5Body weight QTL55.43retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)141103081230320092Rat
1300140Srn3Serum renin concentration QTL 33.19blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)141487516830883947Rat
631528Scl11Serum cholesterol level QTL 114.9blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)141757341219726296Rat
71117Niddm17Non-insulin dependent diabetes mellitus QTL 172.35blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)141759376142336881Rat
631262Tcas4Tongue tumor susceptibility QTL 47.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)141762256142337007Rat
61413Eae10Experimental allergic encephalomyelitis QTL 103.5nervous system integrity trait (VT:0010566)percentage of study population developing relapsing-remitting experimental autoimmune encephalomyelitis during a period of time (CMO:0001402)141762268518274498Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)141854133263541332Rat
61420Pia6Pristane induced arthritis QTL 64.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)141863134542337007Rat


Additional Information

Database Acc Id Source(s)
NCBI Gene Scl11

RGD Curation Notes
Note Type Note Reference
qtl_cross_type backcross  
qtl_general associates with increased serum cholesterol than that of the SHR/Mol 619656