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  • zcrself
    Junior Member
    • Sep 2009
    • 5

    #1

    EBI gene annotation submit

    Using fgensh, I get the annotation as follows:
    Code:
     Positions of predicted genes and exons: Variant   1 from   1, Score:1017.988379 
       G Str   Feature   Start        End    Score           ORF           Len
    
       1 +    1 CDSi       672 -       821   10.03       673 -       819    147
       1 +    2 CDSi       911 -      1040   12.36       912 -      1040    129
       1 +    3 CDSi      1150 -      1809   34.39      1150 -      1809    660
       1 +    4 CDSi      1903 -      2001    6.55      1903 -      2001     99
       1 +    5 CDSi      2080 -      2232   11.66      2080 -      2232    153
       1 +    6 CDSi      2345 -      3076   71.31      2345 -      3076    732
       1 +    7 CDSl      3360 -      3662   26.92      3360 -      3662    303
       1 +      PolA      3841               -1.06
    After format:
    Code:
    FT   gene            672..3662
    FT                   /gene="ORW1943Ba0047B01.1"
    FT   CDS             join(673..821,911..1040,1150..1809,1903..2001,2080..2232,
    FT                   2345..3076,3360..3662)
    FT                   /gene="ORW1943Ba0047B01.1"
    FT                   /codon_start=1
    FT                   /translation="NLINILAEISQSGKQRHVPYRDSKLTFLLQESLGGNAKLAMIC
    FT                   AVSPSQSCKSETLSTLRFAQRAKSIKNNAVVNEQKEEDVNMLREQIRQLKDELHRMK
    FT                   SGGSDGSNGSFSTGWNARRSLHLLKMSLSRPTTFQTIHEDSGDVEMEIDENDVEKPY
    FT                   NQDNMVISPPGDKECKELQASLKINGGTSLDVFDGENLMPTKRSCSDDRYKLNLAAS
    FT                   IQRGLQVIENHQNNGAWRRASVGFNARIVDVQPCKVDVAIQTEPEESEARDNPLALI
    FT                   SSHVLGTSATVSNDPNACRDLQLVQYDAGITRDEPKQQQILKAVEKVLAGAIRREMA
    FT                   RDEQCVKQAAEIQQLNRLVQQYKHERECNAVIAQTREGKIARLESLMDGTLPTEEFI
    FT                   NEEYLSLMNEHKILQQKYENHPELLRAEIELKRLQEELELCRNYIDEKEVLQEEIQD
    FT                   LKSHLHFMLSSSASIRRLWPPVQLSHGVGPSPVTNDADGDNNAVDTPDWAEAESKWV
    FT                   TLTEELRVELEANKSLVGRLRSELESEKKCSEEVKEALQTAMQGHARILEQYAELEE
    FT                   RHIGLLAMHRKIREGVEDVKARAAKAGVKGAELRFINSLAAEMAVLRAENKGLQDQL
    FT                   GDTAEAVQAAGELLVRLKEAEEAEALAQRRALLAEQETEKAYQEIDNLKKNYDQEIV
    FT                   ALNQRLSESSHHQETTLAIEACDMETTKYDTAGSPGDQQWREEFNQQGGSFEVSKST
    FT                   DLNSWFSGYDKCNI"
    After submitted:
    error log as follows:
    Code:
    ERROR: CDS
    join(673..821,911..1040,1150..1809,1903..2001,2080..2232,2345..3076,3360..36
    62)
    ERROR: invalid start codon aat - consider 5' partial location:

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