Edcs1 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL: Edcs1 (Endometrial carcinoma susceptibility QTL1) Rattus norvegicus

Symbol: Edcs1
Name: Endometrial carcinoma susceptibility QTL1
RGD ID: 1600394
Previously known as: Ecs1
Trait: uterus morphology trait   (VT:0001120)    
Measurement Type: percentage of study population developing endometrioid carcinoma during a period of time   (CMO:0001759)    
LOD Score: 2.9
P Value: 0.04
Variance: Not Available
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21118,976,208 - 24,697,116RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.01119,016,272 - 25,069,932RGD_MAPPER_PIPELINERnor6.0
Rnor_5.01122,660,494 - 28,704,954RGDRnor5.0
RGSC_v3.41119,445,919 - 24,982,397RGDRGSC3.4
RGSC_v3.11119,445,919 - 24,982,397RGD
Cross Type: intercross
Strains Crossed: BDII/Ztm SPRD/Ztm 
JBrowse: View Region in Genome Browser (JBrowse)
Model



Candidate Gene Status
App is a candidate Gene for Edcs1
Ets2 is a candidate Gene for Edcs1

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

Experimental Condition

Measurement Method

Vertebrate Trait

Rat Strain
BDII/Ztm  (IEA)
SPRD/Ztm  (IEA)

References

References - curated
# Reference Title Reference Citation
1. Genetic analysis of susceptibility to endometrial adenocarcinoma in the BDII rat model. Roshani L, etal., Cancer Genet Cytogenet. 2005 Apr 15;158(2):137-41.
2. Genetic identification of multiple susceptibility genes involved in the development of endometrial carcinoma in a rat model. Roshani L, etal., Int J Cancer. 2001 Dec 15;94(6):795-9.

Region

Genes in Region
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD IDSymbolNameChrStartStopSpecies
2139Appamyloid beta precursor protein112401977424236584Rat
621376Atp5pfATP synthase peripheral stalk subunit F6112388159423889581Rat
1303131Ncam2neural cell adhesion molecule 2112010497420592168Rat
1310802GabpaGA binding protein transcription factor subunit alpha112388858623917612Rat
1359578Cyyr1cysteine and tyrosine rich 1112455762024664007Rat
1561692Jam2junctional adhesion molecule 2112383082023880071Rat
1583562LOC681129triosephosphate isomerase 1 pseudogene112204586522046777Rat
1586138Pes1-ps1pescadillo ribosomal biogenesis factor 1, pseudogene 1112153064721532896Rat
1583549Rpl32-ps15ribosomal protein L32, pseudogene 15112229514722295534Rat
1587389Eno1-ps22enolase 1, pseudogene 22112253904522541205Rat
1591507Mrpl39mitochondrial ribosomal protein L39112377965523795146Rat
1597984Pcbp2-ps8poly(rC) binding protein 2, pseudogene 8111969395819697409Rat
2324553Tmem126a-ps3transmembrane protein 126A, pseudogene 3112366809823671133Rat
6499722Tmem258-ps5transmembrane protein 258, pseudogene 5112060280420603028Rat
7489038Mir155microRNA 155112377465423774718Rat
7499203LOC102551587uncharacterized LOC102551587112209068322134713Rat
7694615LOC102552104MLV-related proviral Env polyprotein-like112263461022636551Rat
10045371Mir155hgMir155 host gene112377346823775697Rat
11400799LOC108352387H/ACA ribonucleoprotein complex subunit 3 pseudogene112257400922574422Rat
41115113LOC120095718U6 spliceosomal RNA111957838019578477Rat
41207544Eef1e1-ps4eukaryotic translation elongation factor 1 epsilon 1, pseudogene 4112049465120499943Rat
41054117LOC120095600uncharacterized LOC120095600112246683022530379Rat
41401168LOC120095602uncharacterized LOC120095602112362682523639139Rat
41165047LOC120095730small nucleolar RNA SNORA70112379736523797457Rat
40969201LOC120095601uncharacterized LOC120095601112357849723607404Rat
41257749LOC120095802U4 spliceosomal RNA112287406422874217Rat
41061186LOC120095815U6 spliceosomal RNA112466935824669464Rat

Markers in Region
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolExpected SizeChrStartStopSpeciesMatch
33899D11Mit4102112183661521836709Ratregion
34130D11Mgh6100111897620818976310Ratregion
35152D11Rat21180112455591124556101Ratregion
44908D11Got16219112380721823807437Ratregion
44909D11Got14127112409693524097059Ratregion
5031928AU046668256112462147424621734Ratregion
5029797BF387369173112386149523861668Ratregion
5033103RH137609237112059165220591889Ratregion
5030941BE108355178112413337724133555Ratregion
5052145RH94865178112423627424236452Ratregion
5055271RH143705119112387744423877563Ratregion
5055443RH143804248112388569023885938Ratregion
5049882RH133736211112387871823878928Ratregion
5044220RH130478182112388165923882218Ratregion
5044764RH130790205112387970423879909Ratregion
5045416RH131165208112383387723834085Ratregion
5043654RH130150220112455766624557886Ratregion
5043684RH130167208112049557820495786Ratregion
5072112RH136658210112401765724017867Ratregion
5075610RH138693192112464627624646468Ratregion
5077786RH139959194112377562923775823Ratregion
5076496RH139209233112402007924020312Ratregion
5066608AU048257130112026089620261026Ratregion
5068392AU047174219112089351520893734Ratregion
5060102BF388494217112403059224030809Ratregion
5060736BF389056242112410888024109123Ratregion
5062654BF403704178112413675324136932Ratregion
5066542AU048295228112353362623533854Ratregion
5083583BF391905147112432021124320358Ratregion
5090469AU049769192112281273722812929Ratregion
5081529BE117177199112384132723841526Ratregion
5502605RH1255380112401988524020033Ratregion
5500314GDB:185158282112402009224020374Ratregion
5500316GDB:185159326112402035424020680Ratregion
5502813JAM2122112387688823877010Ratregion
5501705NCAM2726112058681920587545Ratregion
5501702APP709112402002224020731Ratregion
Position Markers

Flank 1: (D11Mgh6)
Rat AssemblyChrPosition (strand)Source
mRatBN7.21118,976,208 - 18,976,310 (+)MAPPER
Rnor_6.01119,016,272 - 19,016,371NCBI
Rnor_5.01122,660,494 - 22,660,593UniSTS
RGSC_v3.41119,445,919 - 19,446,020RGD
RGSC_v3.41119,445,921 - 19,446,020UniSTS
RGSC_v3.11119,445,919 - 19,446,020RGD
Celera1118,900,385 - 18,900,484UniSTS
RH 3.4 Map1170.7UniSTS
RH 3.4 Map1170.7RGD
RH 2.0 Map11359.6RGD
Cytogenetic Map11 RGD
Peak: (D11Mit4)
Rat AssemblyChrPosition (strand)Source
mRatBN7.21121,836,615 - 21,836,709 (+)MAPPER
Rnor_6.01122,043,056 - 22,043,149NCBI
Rnor_5.01125,682,678 - 25,682,771UniSTS
RGSC_v3.41122,214,111 - 22,214,205RGD
RGSC_v3.41122,214,112 - 22,214,205UniSTS
RGSC_v3.11122,214,112 - 22,214,205RGD
Celera1121,717,308 - 21,717,401UniSTS
RH 3.4 Map5689.6UniSTS
RH 3.4 Map5689.6RGD
Cytogenetic Map11q11UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634341Bw121Body weight QTL 1213.56abdominal fat pad mass (VT:1000711)abdominal fat pad weight (CMO:0000088)11121836709Rat
1598842Glom10Glomerulus QTL 103.4kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)11135331169Rat
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11843667453436674Rat
2290451Scl58Serum cholesterol level QTL 583.48blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)111283104625121472Rat
724517Uae18Urinary albumin excretion QTL 183.7urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)111647204744285911Rat
1600394Edcs1Endometrial carcinoma susceptibility QTL12.90.04uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)111897620824697116Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112295940367959403Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112328045668280456Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112328045668280456Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat


Additional Information

RGD Curation Notes
Note Type Note Reference
qtl_cross_type intercross  
qtl_general software package used: Genescan Analysis Software 1599856
qtl_general number of animals used: 36; gender: female 1599856
qtl_general significant association between endometrial carcinoma and BDII allele was observed in backcross animals was detected by transmission disequilibrium test (TDT) 1599853
qtl_general measurement method: animals which developed endometrial tumors before teh age of 700 days were considered positive, animals were subjected to necropsy when tumors were suspected 1599856