Casuarina SSR

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Revision as of 03:48, 29 December 2011 by Raj (talk | contribs) (→Develop unigenes)
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New SSRs Pipeline Target

  • Designing Cross species EST SSRs from Casuarina
  • Author: Ashok Kulkarni and Rajkumar
  • Timeline
    • Designing Primers: DEC 2011
    • Oligo synthesis  : JAN 2012
    • Standardisation and Validation  : MAR 2010
    • Manuscript  : JUN 2010

Scientific Assumptions

EST SSRs are supposedly conserved across species therefore higher species transferability is expected

Strategy

  • C. glauca ESTs
  • Develop unigenes
  • Generate statistics
  • Filter the sequence
  • Mine for repeat motifs
  • Design Primers

Implementation

C. glauca ESTs

  • Total Number of ESTs: 34897
  • Total number of C. glauca ESTs: 34805

Develop unigenes

  • TGICL is used
  • Contigs :
  • Singlets:
  • Distribution of length in contigs:
  • Distribution of length in singlets:

Generate statistics

Filter the sequence

Mine for repeat motifs

Design Primers

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