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Sequence 202 Annotation

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    Sequence 202 Annotation

    Brenda Owens and Xiangye Xiao

     

    Main result are in Annotation Word document attached below.

     

    DNA:Masked sequence

    Gene prediction result: FGENESH,GeneMark

    Supplemental page

    cpgplot.1.png

     

    ID F=FGENESH
    G=GENEMARK
    (TSS)
    Start
    End
    (PolyA)
    # Exons Length Strand Blast(blastp)
    202-1 G1 43876 43178 2 38 - no match
    202-2 G2 91786 93238 2 33 + no match
    202-3 G3 121828 121541 2 66 - no match
    202-4 G4 146765 146643 2 12 - no match
    202-5 G5 191859 191441 3 75 - DNA polymerase III, alpha subunit [Thermincola sp. JR] E-value=3.8, probably wrong.
    202-6 F1 (233180)
    233552
    239086
    (239579)
    6 1049 +

    hypothetical protein SORBIDRAFT_08g008680 [Sorghum bicolor] (e value=0), Os12g0239200 [Oryza sativa Japonica Group] (e value=0), ATP binding protein, putative [Ricinus communis](e value=7e-20),proline-rich family protein [Arabidopsis thaliana] (3e-6)

    G6 234736 235483 2 43 + no match
    202-7 G7 268128 267714 2 39 - no match
    202-8 G8 306502 306201 2 39 - no match
    202-9 G9 331498 331833 2 68 + no match
    202-10 F2 (332800)
    332317
    331401
    (330946)
    2 120 - sterol methyl transferase2 [Zea mays] e-value=2e-23 (G10 is 2e-24) also  match with24-methylene lophenol C24(1)methyltransferase [Oryza sativa Japonica Group], e-value=1e-22, and also match with sterol-C-methyltransferase [Arabidopsis thaliana],e-value=3e-15.  So it seems like a methyltransferase gene, at least part of the gene.
    G10 332317 331964 1 117 -
    202-11 G11 332666 332449 2 38 - Sorghum hypothetical protein SORBIDRAFT_10g028520 (e-value=6e-4)
    202-12 F3 (347434)
    347552
    347736
    (348030)
    2 41 + no match
    202-13 F4 (365863)
    365647
    365365
    (365160)
    2 67 - no match
    G12 365815 365207 2 59 - no match
    202-14 F5 (395997)
    395845
    394889
    (394740)
    1 318 - 99% identicial to corn hypothetical protein LOC100277012, 67%  identicial to Sorghum hypothetical protein  SORBIDRAFT_08g009120. Further Analysis
    G13 395845 394889 1 318 -
    202-15 G14 395947 396552 2 51 + Rhodanese domain protein [Burkholderia graminis C4D1M] evalue=8.7, probably wrong
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     202-10 EST.PNG
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    101.6 kB16:53, 10 Dec 2010bowensActions
     202-10 multiple alignment.PNG
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     202-10 top blast matches.PNG
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    111 kB10:03, 10 Dec 2010bowensActions
     202-14 Blast matches.PNG
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     202-14 Chromosome 10 Loc.PNG
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     202-14 EST.PNG
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     202-6 est.PNG
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     202-6 mRNA 1.PNG
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     202-6 mRNA 2.PNG
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     202-6 top blast matches.PNG
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     Annotation Sequence 202.docx
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    43.91 kB23:15, 6 Dec 2010xiao12Actions
     blast_result_202-14.jpg
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     blast_result_202-6.jpg
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    55.95 kB23:15, 6 Dec 2010xiao12Actions
     cpgplot.1.png
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    8.67 kB10:53, 21 Sep 2010xiao12Actions
     FGENESH_result.txt
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     GeneMark_result.txt
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     masked_seq202.txt
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    398.46 kB09:58, 5 Dec 2010xiao12Actions
     seq 202 blast chr10.xlsx
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