Mcs1 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Mcs1 (Mammary carcinoma susceptibility QTL 1) Rattus norvegicus

Symbol: Mcs1
Name: Mammary carcinoma susceptibility QTL 1
RGD ID: 61368
Trait: mammary gland integrity trait   (VT:0010552)    
Measurement Type: mammary tumor number   (CMO:0000343)    
LOD Score: 4.4
P Value: Not Available
Variance: Not Available
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.227,887,772 - 23,319,447RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.025,417,336 - 21,657,459RGD_MAPPER_PIPELINERnor6.0
Rnor_5.025,396,621 - 40,863,012RGDRnor5.0
RGSC_v3.425,601,528 - 22,318,848RGDRGSC3.4
RGSC_v3.125,627,976 - 22,239,217RGD
Cross Type: (WF x COP) F1 x WF backcross
Strains Crossed: COP WF 
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
COP  (IEA)
WF  (IEA)

References

References - curated
# Reference Title Reference Citation
1. Genetic identification of Mcs-1, a rat mammary carcinoma suppressor gene. Hsu LC, etal., Cancer Res 1994 May 15;54(10):2765-70
2. Genetic identification of multiple loci that control breast cancer susceptibility in the rat Shepel LA, etal., Genetics 1998 May;149(1):289-99
3. The rat oncogenome: comparative genetics and genomics of rat models of mammary carcinogenesis. Shull JD Breast Dis. 2007;28:69-86.

Region

Genes in Region
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD IDSymbolNameChrStartStopSpecies
619752Acot12acyl-CoA thioesterase 1222298686723027538Rat
69419Ccnhcyclin H21583483315855643Rat
69413Rasgrf2RAS protein-specific guanine nucleotide-releasing factor 222311361323361537Rat
727842LOC252890Z39 small nucleolar RNA21684197116842030Rat
620249Cetn3centrin 321208902512101828Rat
2412Hapln1hyaluronan and proteoglycan link protein 122063164020696388Rat
621682Nr2f1nuclear receptor subfamily 2, group F, member 1280403758050123Rat
61977Ckmt2creatine kinase, mitochondrial 222307992023110518Rat
621039Rps23ribosomal protein S2322207933922080909Rat
3537Rasa1RAS p21 protein activator 121585770415940757Rat
1305526Fam172afamily with sequence similarity 172, member A275538738018183Rat
619940Vcanversican22076171820860637Rat
1307450Zcchc9zinc finger CCHC-type containing 922303815623048249Rat
1306703Mblac2metallo-beta-lactamase domain containing 221198607512028882Rat
1559647Psmc6-ps2proteasome 26S subunit, ATPase 6, pseudogene 221653532416536530Rat
2300145Cox7ccytochrome c oxidase subunit 7C21684177116843796Rat
1309660Tmem161btransmembrane protein 161B21471445114793809Rat
1308805Lysmd3LysM domain containing 321193378711939944Rat
1564936Atp6ap1lATPase H+ transporting accessory protein 1 like22203754222079376Rat
1562968Ssbp2single-stranded DNA binding protein 222265048822933696Rat
1359478Arrdc3arrestin domain containing 321113744311149978Rat
1562101Adgrv1adhesion G protein-coupled receptor V121133143411911713Rat
1359573Xrcc4X-ray repair cross complementing 422094846421197705Rat
1587624Atg10autophagy related 1022210930422398313Rat
1563119Mef2cmyocyte enhancer factor 2C21397329914136065Rat
1588593Spin1-ps1spindlin 1, pseudogene 121916563719166834Rat
1593792Polr3gRNA polymerase III subunit G21194521511986125Rat
1589456Pou5f2POU domain class 5, transcription factor 2279075047908738Rat
1590822Ubxn1-ps1UBX domain protein 1, pseudogene21122513511226004Rat
1587804Eef1d-ps1eukaryotic translation elongation factor 1 delta, pseudogene 121678312016783583Rat
1587780Dcbld1-ps1discoidin, CUB and LCCL domain containing 1, pseudogene 121695316516959244Rat
1587831Gemin8-ps6gem (nuclear organelle) associated protein 8, pseudogene 621659195116592611Rat
1588877Eef1a1-ps7eukaryotic translation elongation factor 1 alpha 1, pseudogene 722062239720623912Rat
1583248Slc25a5-ps6solute carrier family 25 member 5, pseudogene 6282198768226468Rat
1588887Edil3EGF like repeats and discoidin domains 321989039620405028Rat
1596482Rps8-ps1ribosomal protein S8, pseudogene 121098464010985313Rat
1594513Vdac1-ps1voltage-dependent anion channel 1, pseudogene 121719131017192198Rat
1595695Tuba1a-ps3tubulin, alpha 1A, pseudogene 321190356111905006Rat
1593816Rpl17-ps7ribosomal protein L17, pseudogene 721192000311920552Rat
1594384Tada3-ps1transcriptional adaptor 3, pseudogene 121570446215705839Rat
1596458Tdg-ps1thymine-DNA glycosylase, pseudogene 121106041111064568Rat
2320545Zbtb26-ps1zinc finger and BTB domain containing 26, pseudogene 121738010717440459Rat
2321913Fbl-ps1fibrillarin, pseudogene 121248019912571223Rat
2323318Tmem167atransmembrane protein 167A22119772821216746Rat
4888542Mir3597-2microRNA 3597-221419771114197828Rat
2325602Mir9-2microRNA 9-221419772414197810Rat
6490176Rpl6-ps14ribosomal protein L6, pseudogene 14286091558611368Rat
6499419Csnk1a1-ps2casein kinase 1, alpha 1, pseudogene 221934243119343443Rat
6502717Rplp0-ps3ribosomal protein lateral stalk subunit P0, pseudogene 321447911014479737Rat
7525791LOC102555062uncharacterized LOC10255506221594866515969617Rat
7496117LOC10254886060S ribosomal protein L19-like21258207912590457Rat
7509688Fam98b-ps2family with sequence similarity 98, member B, pseudogene 2280008068013311Rat
7539922LOC102551194uncharacterized LOC10255119421661379816615809Rat
7652976LOC102554243uncharacterized LOC10255424321456843714572006Rat
7645336LOC102549789uncharacterized LOC102549789280530298304831Rat
7599584LOC102554363uncharacterized LOC10255436321532684715337972Rat
7566528LOC102555137AT-rich interactive domain-containing protein 4A-like21597062615973408Rat
7705669Stmnl-ps4stathmin like, pseudogene 421467558414683994Rat
7722382LOC102548480low molecular weight phosphotyrosine protein phosphatase-like21001410310014541Rat
7680557LOC102554306uncharacterized LOC10255430621483017614840060Rat
7710292LOC102552429uncharacterized LOC10255242921391630013972744Rat
9087824LOC103691411uncharacterized LOC10369141121379350613882765Rat
9137253LOC103691419uncharacterized LOC10369141922281453422818085Rat
9106115LOC10369142560S ribosomal protein L7a pseudogene21326822913268696Rat
9225015LOC103694538uncharacterized LOC10369453821735981217380100Rat
9362811LOC103691412uncharacterized LOC10369141221409777814109233Rat
10043200Rps27a-ps29ribosomal protein S27a, pseudogene 2921338964113390087Rat
11367373LOC108350221histone H2A.Z pseudogene21669623316696586Rat
11426534LOC10834991660S ribosomal protein L7a pseudogene21441693714417836Rat
11375591LOC10835015340S ribosomal protein S6 pseudogene22114137121151233Rat
11402434LOC108349917uncharacterized LOC10834991721451189214552563Rat
11380414LOC108349915uncharacterized LOC10834991521327087513302846Rat
11506640LOC108349914uncharacterized LOC10834991421215497012204382Rat
41088779LOC120101163U6 spliceosomal RNA282619198262025Rat
41141624LOC120100651uncharacterized LOC120100651280178818035957Rat
41115917LOC120100658uncharacterized LOC12010065821343900513528948Rat
41326689LOC120100662uncharacterized LOC12010066221530437215326712Rat
41118210LOC120100653uncharacterized LOC12010065321124605711288544Rat
41361600Mrrf-ps1mitochondrial ribosome recycling factor, pseudogene 121168969211690540Rat
41175335LOC120101191U6 spliceosomal RNA21372052213720616Rat
41330271LOC120100660uncharacterized LOC12010066021459565214715634Rat
41389417LOC120100661uncharacterized LOC12010066121526485415280304Rat
41391875Ube2l3-ps3ubiquitin-conjugating enzyme E2L 3, pseudogene 321163469611636749Rat
41268252Trnal-aag15transfer RNA leucine (anticodon AAG) 1522289107822891152Rat
41102332LOC120101160U6 spliceosomal RNA21267725212677358Rat
41184943LOC120101307small nucleolar RNA SNORA1722297417022974295Rat
41072862LOC120100657uncharacterized LOC12010065721325260413344832Rat
41106288LOC120100548uncharacterized LOC12010054821529537015301580Rat
41232309Rpl7a-ps12ribosomal protein L7a, pseudogene 1221630069116367393Rat
40974287LOC120100652uncharacterized LOC12010065221113764811139734Rat
41341754LOC120100665uncharacterized LOC12010066522257644822585015Rat
40980043Rnu1-149RNA, U1 small nuclear 14921139192911392087Rat
40960165LOC120100659uncharacterized LOC12010065921417428814363747Rat
41008983LOC120101325small nucleolar RNA SNORA17283347328334859Rat
41010025LOC120101274small nucleolar RNA SNORA4822032253220322680Rat
40942615Ormdl1-ps16ORMDL sphingolipid biosynthesis regulator 1, pseudogene 1621066856710673066Rat
41075573LOC120100551uncharacterized LOC12010055122306050123065411Rat
41076301LOC120100663uncharacterized LOC12010066322205753722070249Rat
41256822LOC120100656uncharacterized LOC12010065621217127812173747Rat
41056460LOC120101144U6 spliceosomal RNA22055168520551791Rat
41267733Scarna18small Cajal body-specific RNA 1822120778021207914Rat
41318360Trnap-ggg1transfer RNA proline (anticodon GGG) 121265585012655924Rat
41224681LOC120100664uncharacterized LOC12010066422223421222241323Rat
41062866Ormdl1-ps10ORMDL sphingolipid biosynthesis regulator 1, pseudogene 1021907983519081617Rat
41042083LOC120100549uncharacterized LOC12010054921581321215815878Rat

Markers in Region
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolExpected SizeChrStartStopSpeciesMatch
33822D2Mit29246278877727888014Ratregion
36089D2Rat416822146301221463190Ratregion
36205D2Rat217321649174016491908Ratregion
36912D2Rat117421185206211852238Ratregion
35901D2Rat313621098383410983959Ratregion
39946D2Rat251227286345718634800Ratregion
40024D2Rat18917521731960617319743Ratregion
42284D2Rat36820221185628411856483Ratregion
42285D2Rat36924021382088313821113Ratregion
41402D2Rat19116022255537922555559Ratregion
42559D2Rat30821622164545221645651Ratregion
42592D2Rat37722222258926722589503Ratregion
40786D2Rat18714621125172111251855Ratregion
43462D2Got127521092860710928882Ratregion
61291D2Uwm1513922331929623319447Ratregion
62486D2Uia522121557584015576061Ratregion
66484D2Uia1727621491036214910642Ratregion
67797D2Uwm1320121384054213840758Ratregion
67798D2Uwm1414721265410012654247Ratregion
1631679D10Ulb1149522114339421144889Ratregion
1628275D2Ulb2521221860440518604617Ratregion
1629134D2Got37819421374790113748095Ratregion
1638815D2Mco49258289223828922640Ratregion
1633195D2Got39220721053378410533991Ratregion
1633560D2Mco4688721089262610893513Ratregion
7206416mEgCIR3792022293512522935155Ratregion
5035661STS-Z400676321413595014136013Ratregion
5026336RH13181619021208706112087251Ratregion
5031702AU04743514321397882913978972Ratregion
5026458RH13229218321217629912176482Ratregion
5029091RH14348916322265441322654575Ratregion
5029143RH14368017722293845722938634Ratregion
5032277AI98785611721570582515705942Ratregion
5032301AI8433899621479343614793532Ratregion
5029951BE10354818522069355520693740Ratregion
5032791RH13531218722293844822938635Ratregion
5027465AW5586848422293331722933401Ratregion
5030333BE10591718622311470823114894Ratregion
5030337BF40261824222219720722197450Ratregion
5057478AI0305669021210152612101616Ratregion
5055247RH14369111922076205120762170Ratregion
5055467RH14381813122121419721214328Ratregion
5056263RH14427714522323805423238199Ratregion
5056879RH14463320422210789322108097Ratregion
5050044RH13383021421114951211149726Ratregion
5053183RH14250110821148596611486074Ratregion
5050218RH13392921121413315614133367Ratregion
5050606RH13415322022311373523113965Ratregion
5053681RH14278914522203762422037769Ratregion
5053253RH14254210421128825011288354Ratregion
5054703RH14337715721585816315858320Ratregion
5041452RH12886419122121652821216719Ratregion
5048730RH13307220822210989222110100Ratregion
5046414RH13173920522293336122933566Ratregion
5044528RH13065518721584848115848674Ratregion
5047770RH13251818022040469520404875Ratregion
5047280RH13223718121199390511994086Ratregion
5071968RH13538920022311659923116799Ratregion
5072024RH13542121121148534411485555Ratregion
5078088RH14013720822040439320404601Ratregion
5077502RH13979321822094860020948818Ratregion
5079748RH14118021421413569914135913Ratregion
5078578RH14042512422069578320695907Ratregion
5073356RH13738916222303875523038917Ratregion
5071762RH13527020022121564621215846Ratregion
5066992AU048029126281667388166864Ratregion
5068692AU04699120021693930416939504Ratregion
5069384AU04653417122254823222548402Ratregion
5070474AV01117214221413315614133298Ratregion
5065628BI30364712022119590121196021Ratregion
5063650BE10790516422226320222263366Ratregion
5065780BE109854151280648348064985Ratregion
5060882BE10465220122069615220696353Ratregion
5066238PMC123630P1650279079927908642Ratregion
5064866BE108652164280642308064394Ratregion
5089663AU04928923721131667111316908Ratregion
5081929BE11877215821413443914134597Ratregion
5084858AI10299919921734319017343389Ratregion
5081030RH14192418021585103015851210Ratregion
5081152RH14199518822317416623174354Ratregion
5090073AU04953421522029008820290298Ratregion
5082001BG37254013822311880323118941Ratregion
5507547G1064723721413209514132332Ratregion
5503877CRTL124622068537720685623Ratregion
5506254G35939126721564274915644016Ratregion
5499715UniSTS:23416522921169008511690314Ratregion
5500129UniSTS:23706221521194269711942912Ratregion
5502551RH12526912521122525011225375Ratregion
Position Markers

Flank 1: (D2Mit29)
Rat AssemblyChrPosition (strand)Source
mRatBN7.227,887,772 - 7,888,014 (+)MAPPER
Rnor_6.025,417,336 - 5,417,577NCBI
Rnor_5.025,396,621 - 5,396,862UniSTS
RGSC_v3.425,601,528 - 5,601,770RGD
RGSC_v3.425,601,529 - 5,601,770UniSTS
RGSC_v3.125,627,976 - 5,628,373RGD
Celera24,338,310 - 4,338,555UniSTS
Cytogenetic Map2q11UniSTS
Peak: (D2Rat3)
Rat AssemblyChrPosition (strand)Source
mRatBN7.2210,983,834 - 10,983,959 (+)MAPPER
Rnor_6.028,579,280 - 8,579,404NCBI
Rnor_5.028,465,078 - 8,465,202UniSTS
RGSC_v3.428,678,733 - 8,679,068RGD
RGSC_v3.428,678,734 - 8,678,858UniSTS
RGSC_v3.128,602,544 - 8,602,668RGD
Celera27,353,826 - 7,353,950UniSTS
RH 3.4 Map2887.7UniSTS
RH 3.4 Map2887.7RGD
RH 2.0 Map20.0RGD
SHRSP x BN Map20.0299RGD
FHH x ACI Map21.6499RGD
Flank 2: (D2Uwm15)
Rat AssemblyChrPosition (strand)Source
mRatBN7.2223,319,296 - 23,319,447 (+)MAPPER
Rnor_6.0221,657,309 - 21,657,459NCBI
Rnor_5.0240,862,862 - 40,863,012UniSTS
RGSC_v3.4222,318,697 - 22,318,848RGD
RGSC_v3.4222,318,698 - 22,318,848UniSTS
RGSC_v3.1222,239,066 - 22,239,217RGD
Celera219,411,090 - 19,411,268UniSTS
Cytogenetic Map2q12-q14UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631682Bp115Blood pressure QTL 1154.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2137410502Rat
738010Lnnr3Liver neoplastic nodule remodeling QTL 32.94liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)2141244106Rat
61355Bp36Blood pressure QTL 362.9blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)25873687102844969Rat
731166Mamtr2Mammary tumor resistance QTL 20.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)2788777212654247Rat
61368Mcs1Mammary carcinoma susceptibility QTL 14.4mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)2788777223319447Rat
1600379Mcs18Mammary carcinoma susceptibility QTL 182.6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)2788777242804738Rat
738012Anxrr3Anxiety related response QTL 33.8exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)2902351954023519Rat
10755430Coatc6Coat color QTL 60.02576coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)21159110056591100Rat
1578664Bmd9Bone mineral QTL density 95femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)21185206249003364Rat
731184Mamtr4Mammary tumor resistance QTL 40.0003mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)21649174061491740Rat
1357990Ael1Aortic elastin QTL 13.10.00091aorta elastin amount (VT:0003905)aortic elastin21907682564076825Rat
731167Glom4Glomerulus QTL 42.40.0082kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)22030467265304672Rat
2300168Bmd47Bone mineral density QTL 476.60.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)22066244865662448Rat


Additional Information

Database Acc Id Source(s)
NCBI Gene Mcs1

RGD Curation Notes
Note Type Note Reference
qtl_cross_type (WF x COP) F1 x WF backcross