t/data/polymorphism.old.xml

   1
   2 <seqDiff id="M20132" moltype="rna" offset="362" sysname="[c.+4G|A|T;c.+31C|A]" trivname="[E2|K|X;Q11|K]">
   3     <DNA number="1.1" start="4" end="4" length="1" isMutation="0">
   4         <label>point</label>
   5         <label>transition</label>
   6         <proof>computed</proof>
   7         <upFlank>gaagattcagccaagctcaaggatg</upFlank>
   8         <allele_ori>g</allele_ori>
   9         <allele_mut>a</allele_mut>
  10         <dnFlank>aagtgcagttagggctgggaagggt</dnFlank>
  11         <restriction_changes>-BccI</restriction_changes>
  12     </DNA>
  13     <DNA number="1.2" start="4" end="4" length="1" isMutation="0">
  14         <label>point</label>
  15         <label>transversion</label>
  16         <proof>computed</proof>
  17         <upFlank>gaagattcagccaagctcaaggatg</upFlank>
  18         <allele_ori>g</allele_ori>
  19         <allele_mut>t</allele_mut>
  20         <dnFlank>aagtgcagttagggctgggaagggt</dnFlank>
  21         <restriction_changes>-BccI</restriction_changes>
  22     </DNA>
  23     <RNA number="1.1" start="4" end="4" length="1" isMutation="0">
  24         <label>missense</label>
  25         <proof>experimental</proof>
  26         <upFlank>gaagattcagccaagctcaaggatg</upFlank>
  27         <allele_ori>g</allele_ori>
  28         <allele_mut>a</allele_mut>
  29         <dnFlank>aagtgcagttagggctgggaagggt</dnFlank>
  30         <codon codon_ori="gaa" codon_mut="aaa" codon_pos="1"></codon>
  31         <restriction_changes>-BccI</restriction_changes>
  32         <region>coding</region>
  33     </RNA>
  34     <RNA number="1.2" start="4" end="4" length="1" isMutation="0">
  35         <label>nonsense</label>
  36         <proof>experimental</proof>
  37         <upFlank>gaagattcagccaagctcaaggatg</upFlank>
  38         <allele_ori>g</allele_ori>
  39         <allele_mut>t</allele_mut>
  40         <dnFlank>aagtgcagttagggctgggaagggt</dnFlank>
  41         <codon codon_ori="gaa" codon_mut="taa" codon_pos="1"></codon>
  42         <restriction_changes>-BccI</restriction_changes>
  43         <region>coding</region>
  44     </RNA>
  45     <AA number="1.1" start="2" end="2" length="1" isMutation="0">
  46         <label>substitution</label>
  47         <label>conservative</label>
  48         <proof>computed</proof>
  49         <allele_ori>E</allele_ori>
  50         <allele_mut>K</allele_mut>
  51     </AA>
  52     <AA number="1.2" start="2" end="2" length="1" isMutation="0">
  53         <label>truncation</label>
  54         <proof>computed</proof>
  55         <allele_ori>E</allele_ori>
  56         <allele_mut>*</allele_mut>
  57     </AA>
  58     <DNA number="2" start="31" end="31" length="1" isMutation="0">
  59         <label>point</label>
  60         <label>transversion</label>
  61         <proof>computed</proof>
  62         <upFlank>gaagattcagccaagctcaaggatg</upFlank>
  63         <allele_ori>c</allele_ori>
  64         <allele_mut>a</allele_mut>
  65         <dnFlank>aagtgcagttagggctgggaagggt</dnFlank>
  66         <restriction_changes>-CviRI, -SfaNI</restriction_changes>
  67     </DNA>
  68     <RNA number="2" start="31" end="31" length="1" isMutation="0">
  69         <label>missense</label>
  70         <proof>experimental</proof>
  71         <upFlank>gaagattcagccaagctcaaggatg</upFlank>
  72         <allele_ori>c</allele_ori>
  73         <allele_mut>a</allele_mut>
  74         <dnFlank>aagtgcagttagggctgggaagggt</dnFlank>
  75         <codon codon_ori="caa" codon_mut="aaa" codon_pos="1"></codon>
  76         <restriction_changes>-CviRI, -SfaNI</restriction_changes>
  77         <region>coding</region>
  78     </RNA>
  79     <AA number="2" start="11" end="11" length="1" isMutation="0">
  80         <label>substitution</label>
  81         <label>conservative</label>
  82         <proof>computed</proof>
  83         <allele_ori>Q</allele_ori>
  84         <allele_mut>K</allele_mut>
  85     </AA>
  86 </seqDiff>