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Table 3 Peptides fragments of PR-10 isoforms in pollen from five Betula species as identified by Q-TOF LC-MSE.

From: Characterization of PR-10 genes from eight Betula species and detection of Bet v 1 isoforms in birch pollen

Species Fragment I III IV V VII VIII X XVI XVII Sequence coverage
  Isoform Gene        *2    
B. pendula 01A01 1A A a a a a A a? a a 79%
  01A06 1A A a a b a A a? a a 79%
  01B01 1B B B a b a C B a a 79%
  01C04 1C D a a a a D c? a a 71%
  01C05 1C D a a a a D c? a a 71%
  01D01 1D (E) a a (C) (C) (E) a? a a -
  02A01 2A j e a e k k g? (B* 3 ) a 74%
  02B01 2B j e a e k k g? (c * 3 ) a 74%
  02C01 2C j F a e k k a? (c * 3 ) a 74%
  03 *1   (C), ( z ) e ( z ), (Y) e (Z), ( y ) ( z ), (Y) (z), (Y) ( z ) a -
  04 *1   (Y) (Z) (X), (W) (Z) (X) (X) (X) (Y) (Z), (Y) -
  05 *1   (X) (Y) (V) (Y) (W) (W) (W) (X) (X) -
B. chichibuensis 01var09 1A a a a a a d a? a a 79%
  01var12 1B C a a a a d a? a a 79%
  01var17 1C a a a a H (H) c? a a -
  01var18 1C a a a a H d c? a a 71%
  01var19 1D (E) a a (C) (J) (E) a? a a -
  02var03 2A j e B e k k a? (c*3) a 74%
  02var08 2B j F a e k k a? (c*3) a 74%
B. costata 01var01 1A F a a a a c a a a 79%
  01var02 1B a a a a a c a a a 79%
  01var04 1C a (C) a b (E) c (D) a a -
  01var05 1D a a a b a c (E) a a 71%
  01var13 1E D a a a a D a a a 79%
  Unknown   E          ?
  02var05 2A j (J) a e k k a (c * 3 ) a -
  02var10 2B j G a e k k a (c * 3 ) a 74%
  Unknown   F          ?
B. lenta 01var10 1A G A a (A) (F) d a (a* 3 ) a 60%
  01var11 1A G A a (A) (G) d a (a* 3 ) a 60%
  01var16 1B B D a D A d a (a* 3 ) a 74%
  02var01 2A j e a e k k a (c* 3 ) a 74%
  02var04 2B j H a e k k a (c* 3 ) a 74%
  02var07 2C j F a e k k a (c* 3 ) a 74%
B. nigra 01var03 1A B a a B a F a a a 79%
  01var06 1B a a a a - C a a a 74%
  01var07 1C a a a a a C a a a 79%
  01var08 1D a a a a a D F a a 79%
  02var06 2A J K a e K K a (c* 3 ) a 74%
  unknown    F         ?
  1. Each isoform is displayed on a separate line. When isoforms are encoded by the same gene this is indicated in the third column. Note that gene labels in one species do not correspond to gene labels in other species. Peptide fragments are shown at the top of the table and are labelled with Roman numbers as indicated in Fig. 3. Each variant of these fragments is displayed in the Table by a letter. Bold capital letters indicate that a fragment is unique for the isoforms of a particular gene. Bold italic letters indicate that a fragment is unique for the isoforms of a particular subfamily. Letters displayed between brackets indicate that a particular fragment was predicted, but was absent in the PR-10 mixture. Finally, the last column displays the coverage of the total protein sequence, including the fragments that were too small to be detected (II, VI, IX, XI, XII, XIII, XIV, XV). Fig. 3 displays the representative amino acid sequences of the isoforms 01A01 and 02A01.
  2. *1 The isoforms in subfamily 03 to 05 were summarized into a single row and not displayed for the other species, because specific peptides were not detected in any of the species.
  3. *2 Fragments Xa and Xg have exactly the same mass and cannot be distinguished. The peak of peptide Xc overlaps with the first isotope peak of peptide Xa = g because they differ exactly 1 Da in size and have the same charge. As a consequence, Xc cannot be identified separately.
  4. *3 The XVI-peptides are not always detected because of their small size.