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Incorrect strand information in PGDBs #63

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suryasaha opened this issue Aug 29, 2018 · 1 comment
Open

Incorrect strand information in PGDBs #63

suryasaha opened this issue Aug 29, 2018 · 1 comment
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@suryasaha
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No strand info is present in the .PF so PTools show everything on the +ive strand.
Probable solution is STARTBASE > ENDBASE for -ive strand genes.

@suryasaha
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Example of wrong protein

Locus 103524177,  XP_008487403.1, allergen Cr-Pl-like   
DNA sequence (from D. citri cyc version 1.0): 
gaaAGCATAC ACGAATTGGC CTTCATTGAT GTTGTCTCTG GCAAAGGCAG CAGCTTGATA
GAAAGTGTTG AAGTCGTTAG CGAAGTAGAA CAGGTCAAAG AGTTGAACAG CTTGGTTCAG
CTGGTTGTTG TTCAGGACAG AGAACGCAGC ACCTCTTTGT TGAAGCTTGC CTTGTTGGAA
AGCTTGGAAG TATTGCTGAG CAGCTTCAGG GTTCTGtaa

Protein sequence (from D. citri cyc version 1.0):
MSIHELAFID VVSGKGSSLI ESVEVVSEVE QVKELNSLVQ LVVVQDRERS TSLLKLALLE
SLEVLLSSFR VL

http://ptools-citrusgreening-test.sgn.cornell.edu/DIAPHORINA/sequence-aa?type=GENE&object=G1LIR-25083

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