Colcr6 QTL Report (Rattus norvegicus) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
QTL Registration

QTL: Colcr6 (Colorectal carcinoma resistance QTL 6) Rattus norvegicus

Symbol: Colcr6
Name: Colorectal carcinoma resistance QTL 6
RGD ID: 1641889
Previously known as: rat Colorectal carcinoma resistance 6; rCcr6
Trait: intestine integrity trait   (VT:0010554)    
Measurement Type: benign colorectal tumor surface area measurement   (CMO:0001799)    
LOD Score: 2.9
P Value: 0.0126
Variance: Not Available
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81583,700,787 - 108,192,169RGD_MAPPER_PIPELINE
mRatBN7.21573,690,518 - 99,794,247RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.01581,255,292 - 109,133,904RGD_MAPPER_PIPELINERnor6.0
Rnor_5.01584,794,264 - 112,515,839RGDRnor5.0
RGSC_v3.41580,361,961 - 107,849,649RGDRGSC3.4
RGSC_v3.11580,377,742 - 107,865,429RGD
Cross Type: intercross
Strains Crossed: ACI/SegHsd WF/CrCrli 
JBrowse: View Region in Genome Browser (JBrowse)
Model




  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Colcr6RatColorectal Neoplasms  IAGP 1625309 RGD 

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Colcr6Ratincreased colon adenoma incidence  IDA 1625309 RGD 

Clinical Measurement
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Colcr6Ratbenign colorectal tumor surface area measurement  IDA 1625309 RGD 

Experimental Condition
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Colcr6Rat1,2-dimethylhydrazine  IDA 1625309 RGD 

Measurement Method
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Colcr6Ratex vivo caliper method  IDA 1625309 RGD 

Rat Strain
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Colcr6RatACI/SegHsd  IEA 1625309 RGD 
Colcr6RatWF/CrCrli  IEA 1625309 RGD 

Vertebrate Trait
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Colcr6Ratintestine integrity trait  IDA 1625309 RGD 


#
Reference Title
Reference Citation
1. Identification and chromosome mapping of loci predisposing to colorectal cancer that control Wnt/{beta}-catenin pathway and progression of early lesions in the rat. De Miglio MR, etal., Carcinogenesis. 2007 May 17;.
2. Most lung and colon cancer susceptibility genes are pair-wise linked in mice, humans and rats. Quan L, etal., PLoS One. 2011 Feb 24;6(2):e14727.


1 to 20 of 222 rows
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD ID
Symbol
Name
Chr
Start
Stop
Species
9409882Matr3-ps2matrin 3, pseudogene 2157388290973886465Rat
1559682Ppial4gpeptidylprolyl isomerase A like 4G157401562874016215Rat
41121747LOC120097259small nucleolar RNA SNORA17157404462274044753Rat
1559579Ski-ps1Ski proto-oncogene, pseudogene 1157416494974169032Rat
727855Setl1SET-like protein 1157451290974513767Rat
1592073Dach1dachshund family transcription factor 1157452812274909811Rat
41336497Hmgn4-ps4high mobility group nucleosomal binding domain 4, pseudogene 4157462079774621379Rat
41377666Eif1-ps4eukaryotic translation initiation factor 1, pseudogene 4157486420674864707Rat
9459085LOC103693764uncharacterized LOC103693764157490991974915756Rat
40948418LOC120097190uncharacterized LOC120097190157495382274967542Rat
1560069Rpl27l4ribosomal protein L27 like 4157501018575011443Rat
1593229Eef1g-ps9eukaryotic translation elongation factor 1 gamma, pseudogene 9157509038375091676Rat
1592142Pes1-ps6pescadillo ribosomal biogenesis factor 1, pseudogene 6157532363475325610Rat
41030389LOC120097059uncharacterized LOC120097059157557001275574783Rat
1592140Mzt1mitotic spindle organizing protein 1157578728175797589Rat
1309522Borabora, aurora kinase A activator157579762475835599Rat
1304646Dis3DIS3 homolog, exosome endoribonuclease and 3'-5' exoribonuclease157582004075850450Rat
2320932Spic-ps2Spi-C transcription factor, pseudogene 2157582978175831885Rat
1305077Pibf1progesterone immunomodulatory binding factor 1157585038976019711Rat
621446Klf5KLF transcription factor 5157606032076079445Rat

1 to 20 of 222 rows
1 to 20 of 267 rows
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Expected Size
Chr
Start
Stop
Species
Match
34222D15Mgh8139157369051873690657Ratregion
39524D15Rat98136157369906973699205Ratregion
35230D15Rat22146157369906973699215Ratregion
45276D15Got76216157433206474332282Ratregion
45277D15Got74167157446214974462316Ratregion
5028563AI182278290157452820674528496Ratregion
5502778DACH1219157452822074528439Ratregion
5504352D13S1087E120157452979374529913Ratregion
5081935BE118787173157457124774571420Ratregion
5064816BE108573153157475047674750629Ratregion
5086766BE107302180157477310074773280Ratregion
5055797RH144008217157480879474809011Ratregion
5057866BF386288196157483469674834892Ratregion
5059046BE102739154157485185574852009Ratregion
45281D15Got75171157490768274907853Ratregion
41302D15Rat99145157530007875300223Ratregion
41748D15Rat126244157544863775448881Ratregion
45278D15Got77288157568115575681443Ratregion
5038950RH127426245157578738475787629Ratregion
5061192BI293372220157591186275912082Ratregion
1 to 20 of 267 rows

Flank 1: (D15Mgh8)
Rat AssemblyChrPosition (strand)Source
mRatBN7.21573,690,518 - 73,690,657 (+)MAPPER
Rnor_6.01581,255,292 - 81,255,430NCBI
Rnor_5.01584,794,264 - 84,794,402UniSTS
RGSC_v3.41580,361,961 - 80,362,100RGD
RGSC_v3.41580,361,962 - 80,362,100UniSTS
RGSC_v3.11580,377,742 - 80,377,880RGD
Celera1572,959,866 - 72,960,004UniSTS
RH 3.4 MapX349.81UniSTS
RH 3.4 MapX349.81RGD
RH 2.0 Map21234.4RGD
SHRSP x BN Map1543.6598RGD
FHH x ACI Map1559.21RGD
Cytogenetic Map15 RGD
Peak: (D15Rat63)
Rat AssemblyChrPosition (strand)Source
GRCr815106,200,699 - 106,200,875 (+)Marker Load Pipeline
mRatBN7.21599,794,071 - 99,794,247 (+)MAPPER
Rnor_6.015109,133,729 - 109,133,904NCBI
Rnor_5.015112,515,664 - 112,515,839UniSTS
RGSC_v3.415107,849,473 - 107,849,649RGD
RGSC_v3.415107,849,474 - 107,849,649UniSTS
RGSC_v3.115107,865,254 - 107,865,429RGD
Celera1598,564,878 - 98,565,053UniSTS
RH 3.4 Map15710.8UniSTS
RH 3.4 Map15710.8RGD
RH 2.0 Map15611.6RGD
FHH x ACI Map1573.9699RGD
Cytogenetic Map15q25UniSTS
Flank 2: (D15Rat63)
Rat AssemblyChrPosition (strand)Source
GRCr815106,200,699 - 106,200,875 (+)Marker Load Pipeline
mRatBN7.21599,794,071 - 99,794,247 (+)MAPPER
Rnor_6.015109,133,729 - 109,133,904NCBI
Rnor_5.015112,515,664 - 112,515,839UniSTS
RGSC_v3.415107,849,473 - 107,849,649RGD
RGSC_v3.415107,849,474 - 107,849,649UniSTS
RGSC_v3.115107,865,254 - 107,865,429RGD
Celera1598,564,878 - 98,565,053UniSTS
RH 3.4 Map15710.8UniSTS
RH 3.4 Map15710.8RGD
RH 2.0 Map15611.6RGD
FHH x ACI Map1573.9699RGD
Cytogenetic Map15q25UniSTS


1 to 10 of 34 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
1549844Bss7Bone structure and strength QTL 76.4femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1575788062101769107Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
2300326Plaw1Placental weight QTL 1150.005placenta mass (VT:0004257)placenta wet weight (CMO:0002088)1568327165100062518Rat
1300118Bp190Blood pressure QTL 1902.94arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)158226252098288169Rat
1358354Srcrt5Stress Responsive Cort QTL 53.38blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)159815000199043291Rat
70155Gcs1Gastric cancer susceptibility QTL13.8stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)1576306099101769107Rat
724545Niddm54Non-insulin dependent diabetes mellitus QTL 540.02blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)155079449473699215Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)152803066582262678Rat
1300120Kidm7Kidney mass QTL 73.55kidney mass (VT:0002707)left kidney wet weight to body weight ratio (CMO:0001954)158226252098288169Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat

1 to 10 of 34 rows


Note Type Note Reference
qtl_cross_type intercross  
qtl_general Multiplicity of poorly differentiated adenocarcinoma 1625309
qtl_general number of animals used: 20 ACI/SegHsd, 20 WF/CrCrli, 20 ACI/SegHsd x WF/CrCrli F1 and 138 F2; software used: MAPMAKER/EXP3.0 and ANOVA 1625309
qtl_general measurement method: lesions were counted and a caliper was used to determine their maximum and minimum diameter 1625309
qtl_general inducing agent: injection of s.c.dimethylhydrazine (20 mg/kg body weight) weekly for 26 weeks 1625309
qtl_general colorectal lesions appeared as spherical or ovoid lesions with a velvety smooth or slightly bossy appearance in the entire length of colon and rectum 1625309