De Novo RNA Seq Assembly and Annotation of Phaseolus vulgaris L. (SRR1283084)
Sagar S. Patel1
Dipti B. Shah1
Hetalkumar J. Panchal2
1 G. H. Patel Post Graduate Department of Computer Science and Technology, Sardar Patel University, Vallabh Vidyanagar, Gujarat-388120, India
2 Gujarat Agricultural Biotechnology Institute, Navsari Agricultural University, Surat, Gujarat- 395007, India
Genomics and Applied Biology, 2014, Vol. 5, No. 5 doi: 10.5376/gab.2014.05.0005
Received: 21 Aug., 2014 Accepted: 24 Sep., 2014 Published: 22 Oct., 2014
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Preferred citation for this article:
Patel et al., 2014, De Novo RNA Seq Assembly and Annotation of Phaseolus vulgaris L. (SRR1283084), Genomics and Applied Biology, Vol.5, No.5, 1-6 (doi: 10.5376/gab.2014.05.0005)
Phaseolus vulgaris L. which is also known as Common bean; is produced in the tropics on small-scale farms where unfavorable factors limit the yield potential. Recently, next-generation sequencing technology, termed RNA-seq, has provided a powerful approach for analyzing the Transcriptome. This study is focus on RNA-seq of Phaseolus vulgaris L. of SRR1283084 from NCBI database for de novo Transcriptome analysis. A total of 20.4 million single reads were generated with N50 of 293 bp. Sequence assembly contained total 6999 contigs which is further search with known proteins, a total of 1679 genes were identified. Among these, only 629 unigenes were annotated with 3724 gene ontology (GO) functional categories and sequences mapped to 89 pathways by searching against the Kyoto Encyclopedia of Genes and Genomes pathway database (KEGG). These data will be useful for gene discovery and functional studies and the large number of transcripts reported in the current study will serve as a valuable genetic resource of the Phaseolus vulgaris L..
Transcriptome; Bioinformatics; Phaseolus vulgaris L..
Genomics and Applied Biology
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