Table III.

Sequence of methylated fragments and database search

MSAP Fragment3-aLen. Rd3-bPrimers3-cEco/M-HPattern3-dGenBank Accession No.Chromosome (Bacteria Artificial Chromosome Clone)3-eHomology Product, GeneNucl. id.3-f (%)BLAST E ScoreTE Link3-g
bp
RM10-5-24322TCAA/ACCD1 AL138638.23 (F23N14)Nodulin-like protein, F23N14.40884e-47Y
RM10-6-31265CAA/AAAH3 AC015450 1 (F14G6)The end of unknown protein, F14G6.10919e-52N
RM10-5-42205CAA/ACCD1 AB009048.15 (K15E6)FrnE protein-like, K15E6.12912e-25Y
RM10-6-II80CAA/AAAH5 AB025635.15 (MUF8)Related to disease resistance protein, MUF8.2 and MUF8.3965e-04Y
RM10-4-A214TCAA/CAGH1 AC007764.21 (F22C12)Similar to wheat serpin protein, F22C12.21894e-38N
RM10-4-B199TCAA/CAGD1 AC009398.6 and AC007354.21 (F20B24 and T6B5)Non-coding region, between F20B24.12 and F20B24.13936e-49N
RM10-6-34282TCAA/CAAD2 AC022520 and AC019018.71 (F14G24)Putative GTP-binding protein, F14G24.251001e-26Y
RM11-3-23293TCCA/ACAD4 AB005244.25 (MR011)Amino acid transporter, MR011.15974e-140N
RM10-7-I109TCAA/AACH2 AC007357.21 (F3F19)Non-coding region, between F3F19.15 and F3F19.16941e-05N
RM11-6-34160D2 AB006697.1 and Z12120.15 (MAH20)Ser/Thr-protein kinase, MAH20.15 ATPROKIN899e-26; 1e-24N
RM11-6-27141D8 AB026657.13 (MX021)Repeated element, perhaps a MITE873e-22Y?
RM11-6-44160H1, H3 AB023029.15 (K24C1) S-adenosyl-Met:2-demethylmenaquinone methyltransferase like, K24Cl.2817e-05N
RM11-7-50160H2 AF175991.1 and AB010695 5 (MDK4)Myb-related transcription factors-like protein, MYB49948e-48N
Rm11-7-31160Control3-h AL161591.2 and AL035605.14 (F19F18 and F6G17)Non-coding region, between AT4g37560 and AT4g37570952e-70N
  • F3-a  Working designation.

  • F3-b  Length of sequence read.

  • F3-c  Nucleotides' extensions of primers used in amplification listed with the EcoRI primers first and HpaII or MspI second.

  • F3-d  Refer to Table 2; chromosome 1 through 5, bacteria artificial chromosome clone no. pinpoints physical map location.

  • F3-e  GenBank BAC no.

  • F3-f  Nucleotide identity to BLASTN hit; because the MSAP products were identified from unidirectional sequencing of gel-eluted and amplified DNA, the percent identity reflected also the sequencing quality.

  • F3-g  Linkage (less than 6 kb) to annotated transposable element; Y, yes; N, no; Y?, the putative transposable element was not annotated as such in GenBank.

  • F3-h  Positive control, methylated non-differential product from 612.