Indian Journal of Bioinformatics and Biotechnology

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Evolutionary Analysis and Motif Discovery in Pinopsin from Vertebrates


Affiliations
1 Department of Bioinformatics, Uttaranchal College of Science & Technology, Dehradun, India
2 Department of Biotechnology, Uttaranchal College of Science & Technology, Dehradun, India
3 Forest Pathology Division, Forest Research Institute, Dehradun, India
 

In the present investigation, total nine protein sequences of Pinopsin from different organisms of vertebrates were obtained from GenPept database and only 347 characters of each sequence were considered for motif discovery, motif family analysis and phylogenetic analysis. Three different motifs were discovered by MEME program where minimum motif width was 6 and maximum motif width was 50. All three discovered motifs were aligned using MAST tool which revealed the similarity between all of three submitted motif's sequence. The motif matches shown have a position p-value less than 0.0001. Each of the following 9 sequences has an E-value less than 10. Two major sequence clusters were constructed by phylogenetic analysis.
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  • Evolutionary Analysis and Motif Discovery in Pinopsin from Vertebrates

Abstract Views: 668  |  PDF Views: 366

Authors

Akash Kumar
Department of Bioinformatics, Uttaranchal College of Science & Technology, Dehradun, India
Mohd. Zakir Khawaja
Department of Biotechnology, Uttaranchal College of Science & Technology, Dehradun, India
Vivek Dhar Dwivedi
Forest Pathology Division, Forest Research Institute, Dehradun, India

Abstract


In the present investigation, total nine protein sequences of Pinopsin from different organisms of vertebrates were obtained from GenPept database and only 347 characters of each sequence were considered for motif discovery, motif family analysis and phylogenetic analysis. Three different motifs were discovered by MEME program where minimum motif width was 6 and maximum motif width was 50. All three discovered motifs were aligned using MAST tool which revealed the similarity between all of three submitted motif's sequence. The motif matches shown have a position p-value less than 0.0001. Each of the following 9 sequences has an E-value less than 10. Two major sequence clusters were constructed by phylogenetic analysis.

References