Neuinf11 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Neuinf11 (Neuroinflammation QTL 11) Rattus norvegicus

Symbol: Neuinf11
Name: Neuroinflammation QTL 11
RGD ID: 2298542
Trait: nervous system integrity trait   (VT:0010566)    
Measurement Type: spinal cord complement component 1, q subcomponent, B chain mRNA level   (CMO:0002126)    
LOD Score: 3.9
P Value: Not Available
Variance: Not Available
Inheritance Type: additive
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8335,403,199 - 97,383,526RGD_MAPPER_PIPELINE
mRatBN7.2315,005,422 - 76,927,699RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.0310,119,318 - 79,772,001RGD_MAPPER_PIPELINERnor6.0
Rnor_5.0315,478,680 - 86,480,754RGDRnor5.0
RGSC_v3.4310,829,503 - 75,308,165RGDRGSC3.4
Cross Type: Not Available
Strains Crossed: BN/Han LEW.1N 
JBrowse: View Region in Genome Browser (JBrowse)
Model




  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Neuinf11Ratautoimmune disease of the nervous system  IAGP 2311085 RGD 

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Neuinf11Ratabnormal level of surface class II molecules  IDA 2311085 RGD 

Clinical Measurement
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Neuinf11Ratspinal cord complement component 1, q subcomponent, B chain mRNA level  IDA 2311085 RGD 

Experimental Condition
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Neuinf11Ratleft L3-L5 ventral root avulsion  IDA 2311085 RGD 

Measurement Method
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Neuinf11Ratreal-time polymerase chain reaction assay  IDA 2311085 RGD 

Rat Strain
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Neuinf11RatBN/Han  IEA 2311085 RGD 
Neuinf11RatLEW.1N  IEA 2311085 RGD 

Vertebrate Trait
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Neuinf11Ratnervous system integrity trait  IDA 2311085 RGD 


#
Reference Title
Reference Citation
1. Identification of gene regions regulating inflammatory microglial response in the rat CNS after nerve injury. Diez M, etal., J Neuroimmunol. 2009 Jun 12.
2. Unpublished observations for QTL Neuinf4-12 Personal communication with Dr. Diez


1 to 20 of 1014 rows
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD ID
Symbol
Name
Chr
Start
Stop
Species
1584969Abl1ABL proto-oncogene 1, non-receptor tyrosine kinase31497985315083065Rat
735020Qrfppyroglutamylated RFamide peptide31508804515088419Rat
1309097Fibcd1fibrinogen C domain containing 131509268215126371Rat
40980311LOC120101519uncharacterized LOC12010151931512691915130446Rat
1309399Lamc3laminin subunit gamma 331516522015226697Rat
1305081Aif1lallograft inflammatory factor 1-like31522947615254033Rat
1304977Nup214nucleoporin 21431525511115340568Rat
1566351Fam78afamily with sequence similarity 78, member A31535595815376330Rat
1305821Plpp7phospholipid phosphatase 7 (inactive)31538446115398820Rat
41053147LOC120101521uncharacterized LOC12010152131541798115422253Rat
1595906Prrc2bproline-rich coiled-coil 2B31543335715519105Rat
41368742Snord62asmall nucleolar RNA, C/D box 62A31550684715506931Rat
9258213LOC103691765uncharacterized LOC10369176531550848415521544Rat
41397579Snord62bsmall nucleolar RNA, C/D box 62B31551051515510599Rat
620078Pomt1protein-O-mannosyltransferase 131552071715538579Rat
1308313Uck1uridine-cytidine kinase 131553858015544465Rat
1559966Swi5SWI5 homologous recombination repair protein31557468715583760Rat
620282Golga2golgin A231558386215604279Rat
71096Dnm1dynamin 131560478215648654Rat
41286650LOC120102046U1 spliceosomal RNA31565059515650750Rat

1 to 20 of 1014 rows
1 to 20 of 865 rows
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Expected Size
Chr
Start
Stop
Species
Match
10260D3Rat5215631831145418311610Ratregion
10275D3Wox1519536943021969430414Ratregion
10625D3Mgh2012434711353147113655Ratregion
10678D3Mgh2118234187457841874764Ratregion
11260D3Mit820735030267950302886Ratregion
11261D3Wox912735043691350437042Ratregion
11262D3Wox1012635043691350437041Ratregion
11263D3Wox1426635043678550437053Ratregion
11264D3Arb724835043691250437162Ratregion
33862D3Mit924533035677330357018Ratregion
34146D3Mgh69935318459353184692Ratregion
34252D3Mgh1913231922714719227279Ratregion
34336D3Mgh714333945463739454780Ratregion
36047D3Rat4614733684746636847613Ratregion
36167D3Rat5012232071409020714212Ratregion
36195D3Rat5115032146466021464822Ratregion
36261D3Rat3216836822606368226231Ratregion
36311D3Rat3917335853954358539716Ratregion
36354D3Mit2221031916237119162581Ratregion
37282D3Rat10317234539071445390751Ratregion
1 to 20 of 865 rows

Flank 1: (D3Rat58)
Rat AssemblyChrPosition (strand)Source
GRCr8335,403,199 - 35,403,344 (+)Marker Load Pipeline
mRatBN7.2315,005,422 - 15,005,567 (-)MAPPER
Rnor_6.0310,119,318 - 10,119,462NCBI
Rnor_5.0315,478,680 - 15,478,824UniSTS
RGSC_v3.4310,829,519 - 10,829,663UniSTS
RGSC_v3.4310,829,503 - 10,829,729RGD
RGSC_v3.1310,725,672 - 10,725,816RGD
Celera39,753,732 - 9,753,876UniSTS
RH 3.4 Map353.9RGD
RH 3.4 Map353.9UniSTS
RH 2.0 Map30.0RGD
SHRSP x BN Map33.4899RGD
FHH x ACI Map36.9RGD
Cytogenetic Map3p12UniSTS
Peak: (D3Rat52)
Rat AssemblyChrPosition (strand)Source
GRCr8338,708,931 - 38,709,087 (+)Marker Load Pipeline
mRatBN7.2318,311,454 - 18,311,610 (+)MAPPER
Rnor_6.0314,090,411 - 14,090,566NCBI
Rnor_5.0319,410,399 - 19,410,554UniSTS
RGSC_v3.4314,051,872 - 14,052,028RGD
RGSC_v3.4314,051,873 - 14,052,028UniSTS
RGSC_v3.1313,948,245 - 13,948,400RGD
Celera313,028,531 - 13,028,700UniSTS
RH 3.4 Map3157.8UniSTS
RH 3.4 Map3157.8RGD
RH 2.0 Map347.5RGD
SHRSP x BN Map34.6298RGD
Cytogenetic Map3p11UniSTS
Flank 2: (D3Rat30)
Rat AssemblyChrPosition (strand)Source
GRCr8397,383,354 - 97,383,526 (+)Marker Load Pipeline
mRatBN7.2376,927,527 - 76,927,699 (+)MAPPER
Rnor_6.0379,771,830 - 79,772,001NCBI
Rnor_5.0386,480,583 - 86,480,754UniSTS
RGSC_v3.4375,307,994 - 75,308,165UniSTS
RGSC_v3.4375,307,993 - 75,308,165RGD
RGSC_v3.1375,204,366 - 75,204,537RGD
Celera376,136,577 - 76,136,748UniSTS
RH 2.0 Map13186.8RGD
SHRSP x BN Map342.7898RGD
FHH x ACI Map347.0699RGD


1 to 10 of 106 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
1358357Srcrtb1Stress Responsive Cort Basal QTL 16.360.002blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)3865816227494778Rat
11528620Bss113Bone structure and strength QTL 1139.752e-10femur morphology trait (VT:0000559)femoral neck width (CMO:0001695)31649064819241681Rat
8693641Alc30Alcohol consumption QTL 3020.739drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)31043430624512004Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)338192233133483320Rat
631832Sach1Saccharin preference QTL 12.70.02consumption behavior trait (VT:0002069)calculated saccharin drink intake volume (CMO:0001600)32749462144188411Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)329463235118376539Rat
1581568Rf53Renal function QTL 53urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3139874793Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)pulse pressure (CMO:0000292)3133278763Rat
631831Alc8Alcohol consumption QTL 82.7consumption behavior trait (VT:0002069)calculated ethanol drink intake rate (CMO:0001615)3133230976Rat

1 to 10 of 106 rows


Note Type Note Reference
qtl_general software package: phenotypic comparison by Student's t-test; group comparison of phenotypic traits by Kruskal-Wallis' test; phenotypic differences by two-sided students' t-test 2311085
qtl_general number of animals used: 151 F2 rats 2311085
qtl_general measurement method: animals were anesthetized by isoflurane at 6-8 weeks of age and subjected to unilateral avulsion of the left L3-L5 ventral roots, they were killed and spinal cord examined; serial cryosections of L4 were cut and C1q levels were measured 2311085