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Online Journal of Bioinformatics©
Volume 8 (1):75-83, 2007
In silico Cis-regulatory Elements Analysis of Seed Storage
Protein Promoters Cloned
from Different Cultivars of Wheat, Rice and Oat
Yadav D1, Singh VK1, Singh NK2
1Department of Molecular Biology and Genetic Engineering,
Yadav D, Singh VK, Singh NK., In silico Cis-regulatory Elements Analysis of Seed Storage Protein Promoters Cloned from Different Cultivars of Wheat, Rice and Oat, Online J Bioinformatics, 8 (1):75-83, 2007. A total of 24 promoter sequences with assigned accession number EF393165 to EF393188 and representing major seed storage proteins of wheat namely High molecular weight glutenin subunit (HMW-GS), low molecular weight glutenin subunits (LMW-GS) alpha/beta gliadins, triticin along with rice glutelins and oat 12S globulins were cloned from indigenous cultivars of wheat, rice and oat and was subjected to in silico analysis using bioinformatic softwares for the presence of different cis-regulatory motifs. The phylogeny studies based on the multiple sequence alignment of these promoters revealed four distinct clusters showing major group of seed storage promoters. The presence of additional motifs like RY repeats, ABRE, AC-11, CAAT box, LTR, UTR, CCGTCC box, G box, GARE, MBS along with the common motifs present in seed storage promoters like Prolamin-box, TATA, CAAT provides a better option for multifarious uses.
Keywords: Seed storage protein promoters, Cis-regulatory Elements, In silico.