Computational protocol: Cross-breed comparisons identified a critical 591-kb region for bovine carcass weight QTL (CW-2) on chromosome 6 and the Ile-442-Met substitution in NCAPG as a positional candidate

Similar protocols

Protocol publication

[…] Microsatellites were searched for in the genomic sequences and the primers were designed using Primer 3 []. Twenty microsatellite markers from DIK9001 to DIK9020 were developed in this study. The markers were anchored to the BAC fingerprint map [] by a BLAST search (BLASTN) against bovine BAC sequences (HTGS) [] or by screening bovine BAC libraries, RPCI-42 [] and CHORI-240 []. Marker information, such as primer sequences, genomic positions, and locations in the BAC fingerprint map, is shown in Additional file . Genotyping was performed using polymerase chain reaction (PCR) with a fluorescent-labeled reverse primer, followed by electrophoresis using ABI 3730 DNA analyzer (Applied Biosystems, Foster City, CA) and analysis using GeneMapper software (Applied Biosystems). The sires and their offspring were genotyped to determine the phase of the sires' chromosomes. […]

Pipeline specifications

Software tools BLASTN, GeneMapper
Application Capillary electrophoresis analysis
Organisms Bos taurus, Canis lupus familiaris