©1996-2019 All Rights Reserved. Online Journal of Bioinformatics . You may not
store these pages in any form except for your own personal use. All other usage
or distribute on is illegal under international copyright treaties. Permission
to use any of these pages in any other way besides the
before mentioned must be
gained in writing from the publisher. This article is exclusively copyrighted
in its entirety to OJB publications. This article may be copied once but may
not be, reproduced or re-transmitted without the
express permission of the editors. This
journal satisfies the refereeing requirements (DEST) for the Higher Education
Research Data Collection (Australia). Linking:To link to this page or any pages linking to this page you
must link directly to this page only here rather than put up your own page.
OJBTM
In
Silico
mining of single nucleotide polymorphisms in expressed sequence tags dataset of
Allium cepa L.
Radhika
V1, Reddy DCL, Bhardwaj A, Aswath C2
Division of Biotechnology, Indian
Institute of Horticultural Research, Hessaraghatta
Lake, Bangalore , India
ABSTRACT
Radhika V,
Reddy DCL, Bhardwaj A, Aswath C, In Silico mining of
single nucleotide polymorphisms in expressed sequence tags dataset of Allium cepa L., Online J Bioinformatics, 12(1):18-33,
2011.
Single
nucleotide polymorphisms (SNPs) are abundant in plant genomes and are thus used
frequently in genetic analysis and crop breeding programs. Potential SNPs from expressed sequence tags
(ESTs) of Allium cepa were mined for a total
of 232 potential SNPs identified from 20,157 ESTs from NCBI. The SNPs occurred
on an average frequency of 1 per 57 bp in the EST
sequences. The ratio of transitions to transversions
was 1.7: 1, and 65 of the 232 SNP sites were cut by different restriction
enzymes. Primers could be designed for 227 SNPs and used for onion breeding
programs after validation in wet lab.
Keywords: Cap3, contig,
SNPDigger, transition, transversion
FULL-TEXT(SUBSCRIPTION
OR PURCHASE TITLE $25USD)