Foco12 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Foco12 (Food consumption QTL 12) Rattus norvegicus

Symbol: Foco12
Name: Food consumption QTL 12
RGD ID: 7411601
Trait: eating behavior trait   (VT:0001431)    
Measurement Type: feed conversion ratio   (CMO:0001312)    
LOD Score: 19.7
P Value: 0.001
Variance: 8.5
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8592,583,776 - 137,583,776RGD_MAPPER_PIPELINE
mRatBN7.2587,468,046 - 132,468,046RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.0591,585,539 - 136,585,539RGD_MAPPER_PIPELINERnor6.0
Rnor_5.0595,532,085 - 140,532,085RGD_MAPPER_PIPELINERnor5.0
RGSC_v3.4592,932,036 - 137,932,036RGD_MAPPER_PIPELINERGSC3.4
Cross Type: intercross
Strains Crossed: F344/IcoCrlf LOU/NimrOlaHsd 
JBrowse: View Region in Genome Browser (JBrowse)
Model




  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Foco12RatBody Weight  IAGP 7401255 RGD 

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Foco12Ratincreased body weight  IDA 7401255 RGD 
Foco12Ratincreased food intake  IDA 7401255 RGD 

Clinical Measurement
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Foco12Ratfeed conversion ratio  IDA 7401255 RGD 

Experimental Condition
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Foco12Ratcontrol condition  IDA 7401255 RGD 

Measurement Method
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Foco12Ratbody weighing method  IDA 7401255 RGD 

Rat Strain
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Foco12RatF344/IcoCrlf  IEA 7401255 RGD 
Foco12RatLOU/NimrOlaHsd  IEA 7401255 RGD 

Vertebrate Trait
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Foco12Rateating behavior trait  IDA 7401255 RGD 


#
Reference Title
Reference Citation
1. 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.


1 to 20 of 537 rows
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD ID
Symbol
Name
Chr
Start
Stop
Species
41145427LOC120103327small nucleolar RNA SNORA1758750390987504029Rat
1306418RasefRAS and EF hand domain containing58754890887619286Rat
41144701LOC120102901uncharacterized LOC12010290158759930187602345Rat
11502494LOC108351096dnaJ homolog subfamily B member 1 pseudogene58768168087682686Rat
13595842310002L09RiklRIKEN cDNA 2310002L09 like58769273387706183Rat
1304802Frmd3FERM domain containing 358776475588031091Rat
11381374LOC108350987COMM domain-containing protein 2 pseudogene58802717288030854Rat
1562410Dppa3-ps2developmental pluripotency-associated 3, pseudogene 258809741888098963Rat
1307528Kdm4clysine demethylase 4C58810071088306821Rat
1589969Rpl9-ps24ribosomal protein L9, pseudogene 2458836086588361547Rat
41155933LOC120103302small nucleolar RNA SNORA1758857255288572680Rat
1589947Vom2r-ps76vomeronasal 2 receptor, pseudogene 7658869625688791737Rat
1309148Dmac1distal membrane arm assembly component 158924117389243793Rat
1589924Eef1g-ps16eukaryotic translation elongation factor 1 gamma, pseudogene 1658926144489263004Rat
2324835Mdh2-ps1malate dehydrogenase 2, pseudogene 158998218289984494Rat
1561090Ptprdprotein tyrosine phosphatase, receptor type, D59004699390698977Rat
41025543LOC120103209U6 spliceosomal RNA59060509090605193Rat
41013620Cog5-ps1component of oligomeric golgi complex 5, pseudogene 159064539790816683Rat
41344762Drg1-ps2developmentally regulated GTP binding protein 1, pseudogene 259089386490972201Rat
41309747LOC120103065uncharacterized LOC12010306559097382590991561Rat

1 to 20 of 537 rows
1 to 20 of 761 rows
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Expected Size
Chr
Start
Stop
Species
Match
10262D5Rhm31335119564714119564847Ratregion
10263D5Rhm41455119592239119592384Ratregion
10321D5Lev171235103991975103992098Ratregion
10324D5Lev191835124411616124411799Ratregion
10453D5Mcw15128924597128924722Ratregion
10453D5Mcw15129098900129099033Ratregion
10454D5Wox121185128924607128924723Ratregion
10454D5Wox121185129098910129099034Ratregion
10826D5Mgh231285109897808109897936Ratregion
10827D5Lev152925109894810109895102Ratregion
11090D5Rhm21685114659557114659726Ratregion
33804D5Mit62125117817033117817245Ratregion
33981D5Mit426659045014490450412Ratregion
34041D5Mit51445104250862104251008Ratregion
34581D5Mgh272285129132447129132675Ratregion
34583D5Rjr11745129132428129132602Ratregion
33680D5Mit132045131345754131345958Ratregion
33731D5Mit141735131378081131378254Ratregion
36139D5Rat271335118370674118370807Ratregion
36187D5Rat301625128499722128499884Ratregion
1 to 20 of 761 rows

Peak: (D5Rat71)
Rat AssemblyChrPosition (strand)Source
GRCr85115,083,670 - 115,083,882 (+)Marker Load Pipeline
mRatBN7.25109,967,940 - 109,968,152 (+)MAPPER
Rnor_6.05114,085,434 - 114,085,645NCBI
Rnor_5.05118,031,980 - 118,032,191UniSTS
RGSC_v3.45115,431,930 - 115,432,142RGD
RGSC_v3.45115,431,931 - 115,432,142UniSTS
RGSC_v3.15115,437,157 - 115,437,368RGD
Celera5108,583,854 - 108,584,065UniSTS
RH 3.4 Map5779.3UniSTS
RH 3.4 Map5779.3RGD
RH 2.0 Map5702.6RGD
FHH x ACI Map554.59RGD


1 to 10 of 90 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
1300115Hrtrt7Heart rate QTL 72.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)54786906290099692Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5111416838156416838Rat
1298070Scl18Serum cholesterol level QTL 183.7blood LDL cholesterol amount (VT:0000181)calculated plasma low density lipoprotein cholesterol level (CMO:0001245)579584860124584860Rat
1300122Wbc1White blood cell count QTL 12.75leukocyte quantity (VT:0000217)total white blood cell count (CMO:0000365)5125392826139989768Rat
61452Ciaa5CIA Autoantibody QTL 53.5blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)594858972143070159Rat
70156Niddm30Non-insulin dependent diabetes mellitus QTL 303.98blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)5129132447151006154Rat
2302381Bw84Body weight QTL 844.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)568984307104251008Rat
1582230Bw78Body weight QTL 783.20.0016epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)5119085612128034027Rat
7411582Foco3Food consumption QTL 37.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)587468046132468046Rat

1 to 10 of 90 rows


Note Type Note Reference
qtl_cross_type intercross 7401255
qtl_general measurement method: At 16 weeks of age animals were individually housed and given self-selection diet (protein, carbohydrate and fat diet in three separate cups); percentage of carbohydrate intake calculated as the relative amount of calories provided by carbohydrates against total calories consumed 7401255
qtl_general carbohydrate and fat intake are highly correlated 7401255
qtl_general software package used: multiple interval mapping (MIM); MultiQTL software (version 2.6); ANOVA 7401255
qtl_general number of animals used: 94 F2 females 7401255
qtl_map spans from 48.4-123.5 Mb; peak at 85.9 Mb 7401255