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Table 2 Characterization of five mPing excision sites isolated from the mPing -specific TD profiles in the progenies (S1 generation) of etoposide-treated RZ1 plants

From: Changes in DNA methylation and transgenerational mobilization of a transposable element (mPing) by the Topoisomerase II inhibitor, Etoposide, in rice

Excision sites

Excision position a

Locus-specific primers (5’-3’)

Excised from (S1 plant individuals)

Excision footprint

mPT9

Chr.11; Position:

for: tactgccttttgctccatcc

2,4-10,12-14,16,18-26,29-32

gcaagtgaatacTTA < mPing (430bp) > TTAggactactttga

 

22698635-22699300

rev: caggctttgccaatagaaca

 

gcaagtgaatacTAA------------ggactactttga

mPT27

Chr.1; Position:

for: tgtggttgtggtagctgcat

1,3-5,7-10,12-13,15,17-20,23-31

tgccatgtgctaTTA < mPing (430bp) > TTAtgcccggaggcc

 

17840580-17841225

rev: ctgtaccgcacggcagtatt

 

tgccatgtgctaTTA------------tgcccggaggcc

mPL33

Chr.6; Position:

for: gaggcaggagattagggttg

1-3,7-8,11,13-21,23-24,26-30

tctaatggttcaTTA < mPing (430bp) > TTAgggggtagtggg

 

13736451-13737182

rev: gacaatgcccactgttagga

 

tctaatggttcaTTA------------gggggtagtggg

mPL38

Chr.3; Position:

for: caacgcttcacctaaccaca

1-2,4-12,16-32

cagctacactctTTA < mPing (430bp) > TTAtgtggaagaaac

 

23839760-23840381

rev: cggcacacagagaaatgatg

 

cagctacactctTTA------------tgtggaagaaac

mPL39

Chr.11; Position:

for: gtggtttcccatccgtcata

1,3,5,7-10,14,16-24,26-28,30-31

atatcagtacggTTA < mPing (430bp) > TTAagaaacccaaca

 

11010652-11011251

rev: cggctttatcagtgcaaggt

 

atatcagtacggTTA------------agaaacccaaca

  1. a Based on BlastN at the NCBI website.