Schema for MGI QTL - Mouse Genome Informatics Quantitative Trait Loci ***Lifted from NCBI 37 (mm9)***
  Database: mm10    Primary Table: jaxQtl    Row Count: 1,883   Data last updated: 2013-12-02
Format description: Quantitative Trait Loci from Jackson Lab / Mouse Genome Informatics
On download server: MariaDB table dump directory
fieldexampleSQL type info description
chrom chr1varchar(255) values Reference sequence chromosome or scaffold
chromStart 8132781int(10) unsigned range Start position in chromosome
chromEnd 8132961int(10) unsigned range End position in chromosome
name Alcp25varchar(255) values Name of item
score 1000int(10) unsigned range Score from 0-1000 (bed6 compat.)
strand .char(1) values + or - (bed6 compat.)
marker  varchar(255) values MIT SSLP Marker w/highest correlation
mgiID MGI:2150421varchar(255) values MGI ID
description alcohol preference locus 25...varchar(255) values MGI description
cMscore 0float range cM position of marker associated with peak LOD score

Sample Rows
chr181327818132961Alcp251000.MGI:2150421alcohol preference locus 25, male specific0
chr181327818132961Cia151000.MGI:2656532collagen induced arthritis 150
chr11284669526478604Fecq31000.MGI:3640531fecundity QTL 30
chr11329738313297523Morph11000.MGI:2151858morphine antinociception 10
chr11981196919812128Adip11000.MGI:2149041adiposity 10
chr11981196919812128Sle101000.MGI:2149096systematic lupus erythematosus susceptibility 100
chr11981196940262558Idd261000.MGI:3603298insulin dependent diabetes susceptibility 260
chr12087139520871663Amdt11000.MGI:3695445amphetamine distance traveled 10
chr12087139520871663Obq21000.MGI:109231obesity QTL 20
chr12406496624065107Lscc11000.MGI:3040189lung squamous cell carcinoma 10

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.

MGI QTL (jaxQtl) Track Description


This track shows approximate positions of quantitative trait loci based on reported peak LOD scores from Mouse Genome Informatics (MGI) at the Jackson Laboratory.


Thanks to MGI at the Jackson Laboratory, and Bob Sinclair in particular, for providing these data.