Xhs3 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Xhs3 (X-ray hypersensitivity QTL 3) Rattus norvegicus

Symbol: Xhs3
Name: X-ray hypersensitivity QTL 3
RGD ID: 634334
Trait: intestine integrity trait   (VT:0010554)    
Measurement Type: post-insult time to onset of moribundity   (CMO:0001896)    
LOD Score: 10.0
P Value: Not Available
Variance: Not Available
Inheritance Type: recessive
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8486,058,928 - 131,411,333RGD_MAPPER_PIPELINE
mRatBN7.2484,728,680 - 129,854,654RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.0485,794,049 - 129,615,056RGD_MAPPER_PIPELINERnor6.0
Rnor_5.04150,446,360 - 194,116,548RGDRnor5.0
RGSC_v3.4484,355,208 - 131,969,855RGDRGSC3.4
RGSC_v3.1484,598,387 - 132,214,696RGD
Cross Type: intercross
Strains Crossed: LEA/Ncu BN/Sea 
JBrowse: View Region in Genome Browser (JBrowse)
Model




  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Xhs3RatExperimental Radiation Injuries  IDA 631318 RGD 

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Xhs3Ratincreased cellular sensitivity to X-ray irradiation  QTM 631318 RGD 

Clinical Measurement
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Xhs3Ratpost-insult time to onset of moribundity  IDA 631318 RGD 

Experimental Condition
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Xhs3RatX-ray exposure  IDA 631318 RGD 

Measurement Method
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Xhs3Ratin vivo visual assessment  IDA 631318 RGD 

Rat Strain
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Xhs3RatBN/Sea  IEA 631318 RGD 
Xhs3RatLEA/Ncu  IEA 631318 RGD 

Vertebrate Trait
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Xhs3Ratintestine integrity trait  IDA 631318 RGD 


#
Reference Title
Reference Citation
1. X-ray hypersensitivity in the LEA rat: genetic linkage analysis of responsible loci. Agui T, etal., Exp Anim 2001 Apr;50(2):147-51.


1 to 20 of 603 rows
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD ID
Symbol
Name
Chr
Start
Stop
Species
1562793Neurod6neuronal differentiation 648484665984849905Rat
1561131Itprid1ITPR interacting domain containing 148501526485172457Rat
628647Ppp1r17protein phosphatase 1, regulatory subunit 1748521359585230607Rat
68332Pde1cphosphodiesterase 1C48530085885777948Rat
40966591Apoo-ps4apolipoprotein O, pseudogene 448531798985318559Rat
41079727Trnas-aga44transfer RNA serine (anticodon AGA) 4448548230785482381Rat
41168976Trnat-agu9transfer RNA threonine (anticodon AGU) 948552640985526483Rat
41243681LOC120102661small nucleolar RNA SNORA1748579175085791883Rat
41177763LOC120102688small nucleolar RNA SNORA1748581335885813483Rat
1565107Rpsa-ps19ribosomal protein SA, pseudogene 1948586753285868460Rat
1308655Lsm5LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated48595107385954289Rat
1564615Avl9AVL9 cell migration associated48596149386008347Rat
1310317Kbtbd2kelch repeat and BTB domain containing 248602794786050266Rat
1549757Fkbp9FKBP prolyl isomerase 948610625686156723Rat
1312013Nt5c3a5'-nucleotidase, cytosolic IIIA48616164286204656Rat
1585226Hnrnpa1-ps32heterogeneous nuclear ribonucleoprotein A1, pseudogene 3248621647386218622Rat
1585214Vom1r65vomeronasal 1 receptor 6548623591286245705Rat
11356528LOC108350861glyceraldehyde-3-phosphate dehydrogenase pseudogene48625213086253132Rat
1549708Vom1r67vomeronasal 1 receptor 6748626771986268663Rat
1549744Vom1r66vomeronasal 1 receptor 6648628841586289326Rat

1 to 20 of 603 rows
1 to 20 of 625 rows
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Expected Size
Chr
Start
Stop
Species
Match
10513D4Arb63064118050728118051034Ratregion
10525D4Mit311244108086268108086390Ratregion
10560D4Mit121794103194805103194984Ratregion
10561D4Wox201444103194798103194942Ratregion
10562D4Arb212804103194656103194936Ratregion
10782D4Mit81044102684777102684881Ratregion
11229D4Wox281374110891355110891492Ratregion
33905D4Mit1127449136052791360801Ratregion
33933D4Mit161104128289450128289560Ratregion
33991D4Mit282204110275411110275633Ratregion
34023D4Mit291144117809401117809515Ratregion
34256D4Mgh181244126395976126396065Ratregion
11381D4Mgh171374114921280114921417Ratregion
11383D4Mit231204114921294114921414Ratregion
11409D4Wox181134118699850118699963Ratregion
11410D4Arb52474118699819118700066Ratregion
33696D4Mit152314113634394113634625Ratregion
36029D4Rat511684120093877120094047Ratregion
36043D4Rat491524117764993117765145Ratregion
36109D4Rat431364115861544115861680Ratregion
1 to 20 of 625 rows

Flank 1: (D4Rat266)
Rat AssemblyChrPosition (strand)Source
GRCr8486,058,928 - 86,059,077 (+)Marker Load Pipeline
mRatBN7.2484,728,680 - 84,728,829 (+)MAPPER
Rnor_6.0485,794,049 - 85,794,197NCBI
Rnor_5.04150,446,360 - 150,446,508UniSTS
RGSC_v3.4484,355,208 - 84,355,357RGD
RGSC_v3.4484,355,209 - 84,355,357UniSTS
RGSC_v3.1484,598,387 - 84,599,028RGD
Celera479,595,154 - 79,595,302UniSTS
SHRSP x BN Map443.1RGD
SHRSP x BN Map443.1UniSTS
FHH x ACI Map453.55RGD
Peak: (D4Rat49)
Rat AssemblyChrPosition (strand)Source
mRatBN7.24117,764,993 - 117,765,145 (+)MAPPER
Rnor_6.04117,007,421 - 117,007,572NCBI
Rnor_5.04181,587,168 - 181,587,319UniSTS
RGSC_v3.44119,475,289 - 119,475,440UniSTS
RGSC_v3.44119,279,963 - 119,280,113UniSTS
RGSC_v3.44119,475,288 - 119,475,440RGD
RGSC_v3.44119,279,962 - 119,280,113RGD
RGSC_v3.14119,719,770 - 119,719,921RGD
Celera4106,748,232 - 106,748,383UniSTS
RH 3.4 Map4692.0UniSTS
RH 3.4 Map4692.0RGD
RH 2.0 Map4719.1RGD
SHRSP x BN Map454.37RGD
FHH x ACI Map466.87RGD
Cytogenetic Map4q34UniSTS
Flank 2: (D4Rat79)
Rat AssemblyChrPosition (strand)Source
GRCr84131,411,181 - 131,411,333 (+)Marker Load Pipeline
mRatBN7.24129,854,502 - 129,854,654 (+)MAPPER
Rnor_6.04129,614,905 - 129,615,056NCBI
Rnor_5.04194,116,397 - 194,116,548UniSTS
RGSC_v3.44131,969,703 - 131,969,855RGD
RGSC_v3.44131,969,704 - 131,969,855UniSTS
RGSC_v3.14132,214,545 - 132,214,696RGD
Celera4118,730,679 - 118,730,830UniSTS
RH 3.4 Map4784.3UniSTS
RH 3.4 Map4784.3RGD
RH 2.0 Map4872.9RGD
FHH x ACI Map476.91RGD
Cytogenetic Map4q34UniSTS


1 to 10 of 89 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
1582232Gluco25Glucose level QTL 253.60.0023blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)485253748148090731Rat
631689Scl4Serum cholesterol level QTL 41.90.008blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)495174120140174120Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)438465774146803430Rat
1549843Bw53Body weight QTL 530.0001body mass (VT:0001259)body weight gain (CMO:0000420)461697658103194791Rat
61445Strs3Sensitivity to stroke QTL 33cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)44043338885433388Rat
6893678Bw108Body weight QTL 1082.60.006body mass (VT:0001259)body weight (CMO:0000012)44345797688457976Rat
1578655Bmd11Bone mineral density QTL 1111femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)490850165135850165Rat
1300116Hrtrt5Heart rate QTL 53.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)4116179486151161268Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)426775591168368347Rat
1357342Bw40Body weight QTL 400.001body mass (VT:0001259)body weight (CMO:0000012)476647384117676292Rat

1 to 10 of 89 rows


Database
Acc Id
Source(s)
NCBI Gene Xhs3

Note Type Note Reference
qtl_cross_type intercross  
qtl_general associates with the increased number of moribund animals and early onset of the phenotypes compared to the BN/Sea progenitor 631318
qtl_general the crosses of (LEA x LEC)F1 and (LEC x LEA)F1 show a similar degree of X-ray hypersensitivity, suggesting that Xhs1 in LEC is the same locus as Xhs3 in LEC and that sex chromosome does not play a role in determining phenotypes 631318