Sffal2 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Sffal2 (Serum free fatty acids level QTL 2) Rattus norvegicus

Symbol: Sffal2
Name: Serum free fatty acids level QTL 2
RGD ID: 1582201
Previously known as: FFA (dex)
Trait: blood free fatty acid amount   (VT:0001553)    
Measurement Type: serum free fatty acids level   (CMO:0000547)    
LOD Score: 4.0
P Value: 2.0E-4
Variance: 20.0
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81496,755,448 - 100,078,267RGD_MAPPER_PIPELINE
mRatBN7.21492,553,886 - 95,876,975RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.014102,549,183 - 106,641,756RGD_MAPPER_PIPELINERnor6.0
Rnor_5.014102,293,972 - 106,705,037RGDRnor5.0
RGSC_v3.41499,079,814 - 102,509,397RGDRGSC3.4
RGSC_v3.11499,098,960 - 102,528,608RGD
Cross Type: intercross
Strains Crossed: PD/Cub BN/Cub 
JBrowse: View Region in Genome Browser (JBrowse)
Model



Experimental Data Annotations    Click to see Annotation Detail View

Clinical Measurement
Object SymbolSpeciesTermQualifierEvidenceWithReferenceNotesSourceOriginal Reference(s)
Sffal2Ratserum free fatty acids level  IDA 1580752 RGD 

Experimental Condition
Object SymbolSpeciesTermQualifierEvidenceWithReferenceNotesSourceOriginal Reference(s)
Sffal2Ratcontrolled sucrose content diet  IDA 1580752 RGD 
Sffal2Ratdexamethasone  IDA 1580752 RGD 
Sffal2Ratfasting  IDA 1580752 RGD 

Measurement Method
Object SymbolSpeciesTermQualifierEvidenceWithReferenceNotesSourceOriginal Reference(s)
Sffal2Ratliquid phase colorimetry  IDA 1580752 RGD 

Rat Strain
Object SymbolSpeciesTermQualifierEvidenceWithReferenceNotesSourceOriginal Reference(s)
Sffal2RatBN/Cub  IEA 1580752 RGD 
Sffal2RatPD/Cub  IEA 1580752 RGD 

Vertebrate Trait
Object SymbolSpeciesTermQualifierEvidenceWithReferenceNotesSourceOriginal Reference(s)
Sffal2Ratblood free fatty acid amount  IDA 1580752 RGD 

Disease Annotations     Click to see Annotation Detail View

Experimental Data Annotations     Click to see Annotation Detail View

Clinical Measurement

Experimental Condition

Measurement Method

Vertebrate Trait

Rat Strain
BN/Cub  (IEA)
PD/Cub  (IEA)

References

References - curated
# Reference Title Reference Citation
1. Dynamic genetic architecture of metabolic syndrome attributes in the rat. Seda O, etal., Physiol Genomics. 2005 Apr 14;21(2):243-52. Epub 2005 Feb 22.

Region

Genes in Region
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD IDSymbolNameChrStartStopSpecies
40977515LOC120096678uncharacterized LOC120096678149311603393147067Rat
1585482Meis1Meis homeobox 1149315542693294373Rat
9301616LOC103693204uncharacterized LOC103693204149330204293310404Rat
11466963LOC108352806uncharacterized LOC108352806149341156093421104Rat
7606982LOC102551829uncharacterized LOC102551829149390812293910470Rat
1591079Rps2-ps39ribosomal protein S2, pseudogene 39149398860293989324Rat
41096592LOC120096679uncharacterized LOC120096679149401636694022660Rat
40926375LOC120096680uncharacterized LOC120096680149412774594137748Rat
41172352LOC120096681uncharacterized LOC120096681149413848594146076Rat
1309304Spred2sprouty-related, EVH1 domain containing 2149414921094250787Rat
41249970Trnap-agg79transfer RNA proline (anticodon AGG) 79149426147894261558Rat
41010079Actr1a-ps1actin related protein 1A, pseudogene 1149427561694280123Rat
1310826Actr2actin related protein 2149429644394333735Rat
41196480LOC120096761U6 spliceosomal RNA149430763594307740Rat
41231038LOC120096684uncharacterized LOC120096684149433374194338506Rat
2323677Rps27-ps8ribosomal protein S27, pseudogene 8149435080494399082Rat
1589907Rpl38-ps2ribosomal protein L38, pseudogene 2149439999594400277Rat
619736Rab1aRAB1A, member RAS oncogene family149442221994448799Rat
1309101Cep68centrosomal protein 68149444797394470533Rat
735146Slc1a4solute carrier family 1 member 4149453080194560190Rat
11509257LOC108352807uncharacterized LOC108352807149456056994568126Rat
7747850LOC102547925uncharacterized LOC102547925149465505494664167Rat
9391524LOC103693208uncharacterized LOC103693208149466620894674847Rat
1564049Sertad2SERTA domain containing 2149473363794838200Rat
1311920Aftphaftiphilin149487142994925625Rat
11455995Rps28-ps5ribosomal protein S28, pseudogene 5149493747794937817Rat
1307414Lgalslgalectin-like149499699195004499Rat
7567433LOC102548772uncharacterized LOC102548772149500327895033943Rat
41137280LOC120096688uncharacterized LOC120096688149500443595007530Rat
11400929Rps12l10ribosomal protein S12 like 10149501796395020005Rat
41014016LOC120096689uncharacterized LOC120096689149505924895114522Rat
7628157LOC102549056uncharacterized LOC102549056149509482895099101Rat
7704924LOC102547058uncharacterized LOC102547058149516702395169167Rat
7582242LOC102547136uncharacterized LOC102547136149518434595189240Rat
1311199Peli1pellino E3 ubiquitin protein ligase 1149525427495309168Rat
628718Vps54VPS54 subunit of GARP complex149537882195455871Rat
41119964LOC120096820small nucleolar RNA SNORA17149538853095388662Rat
1310210Ugp2UDP-glucose pyrophosphorylase 2149545633095497483Rat
3072Mdh1malate dehydrogenase 1149563062595645920Rat
1309501WdpcpWD repeat containing planar cell polarity effector149564595595977120Rat

Markers in Region
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolExpected SizeChrStartStopSpeciesMatch
35897D14Rat22170149587680595876975Ratregion
40406D14Rat109132149384310293843234Ratregion
40140D14Rat95193149502301895023211Ratregion
39030D14Rat38206149255388692554092Ratregion
42395D14Rat138130149466695094667080Ratregion
42396D14Rat139211149347693093477141Ratregion
60077D14Got81134149377560093775732Ratregion
60080D14Got85138149294484492944980Ratregion
60082D14Got88146149295700892957154Ratregion
625817D14Got82295149308583193086126Ratregion
66571D14Mco5251149373661493736865Ratregion
1630365D14Got131255149263463392634888Ratregion
1641382D14Got168121149306112293061245Ratregion
1635036D14Got124179149265088392651062Ratregion
5035731RH12683111149483739894837509Ratregion
7206628Slc1a4999149453010794531106Ratregion
5036414Mor2470149563297895633448Ratregion
5036879AU049495260149515210595152365Ratregion
5036953AU049735134149384062393840757Ratregion
5037067WI-13176112149444866194448773Ratregion
5034307UniSTS:226084138149530773295307870Ratregion
5034307UniSTS:226084138149530773295307870Ratregion
5030003BF388547221149330094493301165Ratregion
5056945RH144671177149430326094303437Ratregion
5058550BE102015170149461700394617173Ratregion
5057768BF386159162149445049294450654Ratregion
5054719RH143386135149429754394297678Ratregion
5050966RH134361202149563147695632931Ratregion
5046168RH131597210149503362395033833Ratregion
5045306RH131102220149456212294562342Ratregion
5047550RH132392192149488114894881340Ratregion
5049198RH133342208149429699994297207Ratregion
5049344RH133427196149545641295456608Ratregion
5042144RH129265180149483794794838127Ratregion
7192181Rab1217149444474394444960Ratregion
5040360RH128238206149456584694566052Ratregion
5076320RH139107161149429833494298495Ratregion
5076330RH139113136149443935794439493Ratregion
5074650RH138139188149541647195416659Ratregion
5080590RH141668201149483395094834151Ratregion
5079850RH141239216149487154194871757Ratregion
5080208RH141447189149530890995309097Ratregion
5073974RH137746165149441770994417874Ratregion
5068498AU047109170149418309094183260Ratregion
5070502D11Ertd676e198149530797695308174Ratregion
5061860AW533906190149482369794823887Ratregion
5063978BE120360111149563052395630634Ratregion
5060738BF389057152149319170593191857Ratregion
5061668BF40239897149546195295462049Ratregion
5086145AI454148180149545475395454933Ratregion
5087392BQ194767162149529951495299676Ratregion
5089775AU049356155149581048295810637Ratregion
5088003Meis1154149315576793155921Ratregion
5082545BE119677141149499720994997350Ratregion
5083275BI27591393149446060294460695Ratregion
5083355AA81843790149429898894299078Ratregion
5503688MEIS1_7825747149315527193156018Ratregion
5504276D2S1567E702149563151695632217Ratregion
5504664PMC343796P1133149329148893291621Ratregion
5502770PELI1165149530890795309072Ratregion
5502770PELI1165149530890795309072Ratregion
Position Markers

Flank 1: (D14Rat38)
Rat AssemblyChrPosition (strand)Source
GRCr81496,755,448 - 96,755,654 (+)Marker Load Pipeline
mRatBN7.21492,553,886 - 92,554,092 (+)MAPPER
Rnor_6.014102,549,183 - 102,549,388NCBI
Rnor_5.014102,293,972 - 102,294,177UniSTS
RGSC_v3.41499,079,814 - 99,080,020RGD
RGSC_v3.41499,079,815 - 99,080,020UniSTS
RGSC_v3.11499,098,960 - 99,099,165RGD
Celera1491,586,511 - 91,586,716UniSTS
RH 3.4 Map14705.3RGD
RH 3.4 Map14705.3UniSTS
SHRSP x BN Map1463.96UniSTS
SHRSP x BN Map1463.96RGD
Peak: (D14Rat22)
Rat AssemblyChrPosition (strand)Source
GRCr814100,078,097 - 100,078,267 (+)Marker Load Pipeline
mRatBN7.21495,876,805 - 95,876,975 (+)MAPPER
Rnor_6.014106,641,587 - 106,641,756NCBI
Rnor_5.014106,704,868 - 106,705,037UniSTS
RGSC_v3.414102,509,228 - 102,509,397UniSTS
RGSC_v3.414102,509,227 - 102,509,397RGD
RGSC_v3.114102,528,439 - 102,528,608RGD
Celera1494,880,114 - 94,880,283UniSTS
RH 3.4 Map14758.0RGD
RH 3.4 Map14758.0UniSTS
RH 2.0 Map14823.7RGD
SHRSP x BN Map1466.2099RGD
FHH x ACI Map1475.96RGD
Cytogenetic Map14q22UniSTS
Flank 2: (D14Rat22)
Rat AssemblyChrPosition (strand)Source
GRCr814100,078,097 - 100,078,267 (+)Marker Load Pipeline
mRatBN7.21495,876,805 - 95,876,975 (+)MAPPER
Rnor_6.014106,641,587 - 106,641,756NCBI
Rnor_5.014106,704,868 - 106,705,037UniSTS
RGSC_v3.414102,509,228 - 102,509,397UniSTS
RGSC_v3.414102,509,227 - 102,509,397RGD
RGSC_v3.114102,528,439 - 102,528,608RGD
Celera1494,880,114 - 94,880,283UniSTS
RH 3.4 Map14758.0RGD
RH 3.4 Map14758.0UniSTS
RH 2.0 Map14823.7RGD
SHRSP x BN Map1466.2099RGD
FHH x ACI Map1475.96RGD
Cytogenetic Map14q22UniSTS


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1582201Sffal2Serum free fatty acids level QTL 240.0002blood free fatty acid amount (VT:0001553)serum free fatty acids level (CMO:0000547)149255388695876975Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1455624247100624247Rat
1582236Gluco22Glucose level QTL 223.30.0164blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)147341532392554092Rat
631213Bw60Body weight QTL604.51retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)147995092195876975Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1455147478100147478Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)144079346098037301Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1470053989104886043Rat
1582197Gluco27Glucose level QTL 273.40.0006blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)147341532392554092Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1458184885103184885Rat
1582250Gluco26Glucose level QTL 263.30.0009blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)147341532395876975Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1456631369101631369Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1470053989104886043Rat
4889951Bss92Bone structure and strength QTL 923.9tibia area (VT:1000281)tibia-fibula cortical bone total cross-sectional area (CMO:0001721)148205747195876975Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
1582255Gluco29Glucose level QTL 293.10.0025blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)147341532392554092Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1455624247100624247Rat
1582209Gluco20Glucose level QTL 203.80.0005blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)147341532392554092Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144226252995023211Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)145002321195023211Rat


Additional Information

RGD Curation Notes
Note Type Note Reference
qtl_cross_type intercross  
qtl_general dexamethasone (DEX) was given in drinking water (0.026mg/ml) for 3 days and free fatty acid level was determined using an acyl-CoA oxidase-based colorimetric kit 1580752
qtl_statistics_details specific pairs of variables were compared by one or two way ANOVA with post hoc Tukey's honest significance difference test 1580752