PASA Pipeline - Rice Genome Annotation Project
PASA Pipeline - Rice Genome Annotation Project
PASA Pipeline - Rice Genome Annotation Project
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Transcript Sequences<br />
<strong>PASA</strong> <strong>Pipeline</strong><br />
Seqclean<br />
BLAT and sim4 spliced alignments<br />
Align to <strong>Genome</strong><br />
Cluster overlapping alignments<br />
<strong>PASA</strong> alignment assembly<br />
subCluster <strong>PASA</strong> assemblies<br />
Compare to annotation<br />
Update annotation<br />
Valid alignment criteria:<br />
• min 95% Identity<br />
min 90% transcript length aligned<br />
(both configurable parameters)<br />
• consensus splice sites<br />
•(GT,GC) donors<br />
•AG acceptor<br />
• Assign Transcribed Orientations<br />
•Splice sites<br />
•Polyadenylation sites
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