Schws4 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Schws4 (Schwannoma susceptibility QTL 4) Rattus norvegicus

Symbol: Schws4
Name: Schwannoma susceptibility QTL 4
RGD ID: 1576302
Previously known as: Mediating schwannoma susceptibility QTL 4; Mss4
Trait: nervous system integrity trait   (VT:0010566)    
Measurement Type: percentage of study population developing trigeminal nerve neurilemmomas during a period of time   (CMO:0002017)    
LOD Score: Not Available
P Value: 0.0078
Variance: Not Available
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8678,204,640 - 123,204,640RGD_MAPPER_PIPELINE
mRatBN7.2683,190,345 - 106,747,639RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.0687,418,448 - 111,129,520RGD_MAPPER_PIPELINERnor6.0
Rnor_5.0696,954,540 - 120,415,502RGD_MAPPER_PIPELINERnor5.0
RGSC_v3.4686,446,712 - 111,234,448RGD_MAPPER_PIPELINERGSC3.4
RGSC_v3.1676,344,036 - 121,344,036RGD
Cross Type: Not Available
Strains Crossed: BDIV/Zte BDIX/Zte 
JBrowse: View Region in Genome Browser (JBrowse)
Model



Gpx2 is a candidate Gene for Schws4


  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Schws4Ratneurilemmoma  IAGP 1559300 RGD 

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Schws4Ratincreased incidence of induced tumors  IAGP 1559300 RGD 

Clinical Measurement
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Schws4Ratpercentage of study population developing trigeminal nerve neurilemmomas during a period of time  IDA 1559300 RGD 

Experimental Condition
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Schws4RatN-ethyl-N-nitrosourea  IDA 1559300 RGD 

Measurement Method
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Schws4Ratin vivo visual assessment  IDA 1559300 RGD 

Rat Strain
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Schws4RatBDIV/Zte  IEA 1559300 RGD 
Schws4RatBDIX/Zte  IEA 1559300 RGD 

Vertebrate Trait
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Schws4Ratnervous system integrity trait  IDA 1559300 RGD 


#
Reference Title
Reference Citation
1. Sex-biased suppression of chemically induced neural carcinogenesis in congenic BDIX.BDIV-Mss4a rats. Koelsch B, etal., Physiol Genomics. 2011 May 1;43(10):631-9. doi: 10.1152/physiolgenomics.00246.2010. Epub 2011 Mar 22.
2. Gender-specific polygenic control of ethylnitrosourea-induced oncogenesis in the rat peripheral nervous system. Koelsch BU, etal., Int J Cancer. 2006 Jan 1;118(1):108-14.


1 to 20 of 352 rows
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD ID
Symbol
Name
Chr
Start
Stop
Species
1594757Mis18bp1MIS18 binding protein 168318249783231978Rat
1597505Faul1FAU ubiquitin like and ribosomal protein S30 fusion like 168322875183229261Rat
6497625Vdac1-ps15voltage-dependent anion channel 1, pseudogene 1568327846983279491Rat
41120331LOC120093256uncharacterized LOC12009325668331404683353136Rat
41156721LOC120093430small nucleolar RNA SNORA4868340667483406809Rat
40958936LOC120093448small nucleolar RNA SNORA1768351670483516832Rat
41023230LOC120093444small nucleolar RNA SNORA1768369407183694202Rat
41316972LOC120093257uncharacterized LOC12009325768417249884177501Rat
1593470Gemin8-ps8gem (nuclear organelle) associated protein 8, pseudogene 868427366484274511Rat
1592352H2az2l2H2A.Z histone variant 2 like 268432180184322513Rat
11509237LOC108351242uncharacterized LOC10835124268432810184449141Rat
11488287LOC108351243uncharacterized LOC10835124368444920884471178Rat
1305913Rpl10lribosomal protein L10 like68454477184545791Rat
41061609LOC120093487U2 spliceosomal RNA68471415384714319Rat
735131Mdga2MAM domain containing glycosylphosphatidylinositol anchor 268474642285608640Rat
41088860LOC120093460small nucleolar RNA SNORA1768486751684867654Rat
9378291Mterf1-ps4mitochondrial transcription termination factor 1, pseudogene 468507777585097837Rat
41070124Snora32small nucleolar RNA, H/ACA box 3268528818185288298Rat
41343863LOC120093465U2 spliceosomal RNA68601876886018953Rat
1592266Rpl11-ps10ribosomal protein L11, pseudogene 1068621246286220022Rat

1 to 20 of 352 rows
1 to 20 of 490 rows
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Expected Size
Chr
Start
Stop
Species
Match
33800D6Mit139968947314389473242Ratregion
33987D6Mit819969370131093701509Ratregion
34108D6Mgh101466104200080104200226Ratregion
34126D6Mgh41476104085867104086014Ratregion
33662D6Mit112869496892894969056Ratregion
37280D6Rat10412868531106185311189Ratregion
37376D6Rat8718969487683194877020Ratregion
36834D6Rat1751306103543936103544066Ratregion
37848D6Rat10018269683399796834179Ratregion
36518D6Rat131476102872536102872683Ratregion
36665D6Rat1419769653573096535927Ratregion
36761D6Rat6317369248448292484655Ratregion
34841D6Rat911626103829422103829584Ratregion
34886D6Rat151736100873387100873560Ratregion
35102D6Rat1617669312766793127822Ratregion
35659D6Rat1815268976287789763029Ratregion
39680D6Rat1892376105687507105687744Ratregion
39934D6Rat12022969883991598840146Ratregion
38246D6Rat712436105995622105995865Ratregion
38268D6Rat10211969441398594414104Ratregion
1 to 20 of 490 rows

Flank 1: (D6Rat218)
Rat AssemblyChrPosition (strand)Source
RGSC_v3.1690,954,315 - 90,955,031RGD
FHH x ACI Map663.52UniSTS
FHH x ACI Map663.52RGD
Peak: (D6Mit1)
Rat AssemblyChrPosition (strand)Source
GRCr86100,704,576 - 100,704,704 (+)Marker Load Pipeline
mRatBN7.2694,968,928 - 94,969,056 (+)MAPPER
Rnor_6.0699,273,921 - 99,274,048NCBI
Rnor_5.06108,684,958 - 108,685,085UniSTS
RGSC_v3.4698,840,517 - 98,840,644UniSTS
RGSC_v3.4698,840,516 - 98,840,644RGD
RGSC_v3.1698,843,972 - 98,844,100RGD
Celera693,393,857 - 93,393,984UniSTS
Cytogenetic Map6q24UniSTS
Flank 2: (NGB)
Rat AssemblyChrPosition (strand)Source
mRatBN7.26106,746,842 - 106,747,639 (+)MAPPER
Rnor_6.06111,128,724 - 111,129,520NCBI
Rnor_5.06120,414,706 - 120,415,502UniSTS
RGSC_v3.46111,233,652 - 111,234,448UniSTS
Celera6104,568,304 - 104,569,100UniSTS
Cytogenetic Map6q31UniSTS


1 to 10 of 41 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
9590290Uminl2Urine mineral level QTL 23.960.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)63878398983783989Rat
12801411Schws8Schwannoma susceptibility QTL 8nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)694968928139968928Rat
1331797Bp213Blood pressure QTL 2133.291arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)6104085867128713626Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)672202632130919985Rat
71111Iddm8Insulin dependent diabetes mellitus QTL 81.90.002blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)6105156861140994061Rat
1358355Srcrt4Stress Responsive Cort QTL 46.39blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)6100364669140994061Rat
634330Pia16Pristane induced arthritis QTL 163.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)645790088104200226Rat
2313399Anxrr28Anxiety related response QTL 28aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)6100671796132340886Rat
1331789Rf37Renal function QTL 373.224kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)672202632115200186Rat
1331725Bp212Blood pressure QTL 2123.52475arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)693701310128713626Rat

1 to 10 of 41 rows


Note Type Note Reference
qtl_statistics_details logistic regression model for analysis of schwannoma incidence (dichotomous), Cox regression model for analysis of survival times (quantitative); highest significance for females only, schwannoma incidence, also significant for all animals, schwannoma incidence and females only, survival time 1559300