Summary
Name
Mangifera indica - Transcriptome Assembly
Resource Type
Transcriptome Assembly
Organism
Ontology Browser
View Gene Ontology browser or KEGG Ontology browser for Mangifera indica
Data Source
Date Performed
Friday, June 21, 2019 - 11:58
Program, Pipeline, Workflow or Method Name
De novo assembly
Program Version
MIRA, v3.2
Publication
Sherman, A., Rubinstein, M., Eshed, R., Benita, M., Ish-Shalom, M., Sharabi-Schwager, M., ... & Ophir, R. (2015). Mango (Mangifera indica L.) germplasm diversity based on single nucleotide polymorphisms derived from the transcriptome. BMC plant biology, 15(1), 277. Source.
Description and Download
Description: 
Four unigenes datasets were obtained corresponding to four mango cultivars from Jamil-ur-Rahman Center for Genome Research, Dr. Panjwani Center for Molecular Medicine and Drug Research, International Center for Chemical and Biological Sciences, University of Karachi. The Blast Analysis or sequence comparison of unigenes of four mango cultivars were done against two databases: non–redundant (NR) protein sequence and Swiss–Prot. All unigenes of Pakistan dataset (cv. Langra) were aligned against non–redundant (NR) protein sequence database using BLASTX (E value cutoff ≤ 1e–3 and 10 hits per sequence) in Blast2GO java application o retrieve common transcripts. Obtained results were then subjected to mapping and annotation for functional annotation and Gene Ontology (GO) assignments The four mango cultivars show they have 30,953, 57,544, 58,797 and 85,036 unigenes respectively generated by transcriptomic de novo assembly resulted from Trinity
Give Feedback!