Rice Transposon Flanking Sequence Tag Database
For instructions on how to use this database follow this link: Instructions
Transposable elements used in the insertion lines
These transposon insertion lines contain dSpm or Ds transposable elements. Each element carries the DsRed positive selection marker. The insertions are expected to be stable, because the transposase has been segregated away in the selection for the insertion lines.
RGT (Rice Gene Trap insertion line) Ds-gene trap element carrying a promoterless GUS reporter gene with the GPA1 intron and triple splice acceptor (SA) sequences upstream of ATG codon. This gene trap will reflect the expression pattern of the tagged endogenous rice gene if inserted in the right orientation, as previously demonstrated in Arabidopsis and Rice (Sundaresan et al., 1995, Kolesnik et al. 2003).
RDs (Rice Ds insertion line) Simple Ds element.
RdSpm (Rice dSpm insertion line) dSpm element.
The following transposon-specific nested primers were used to obtain transposon flanking sequence at the site of insertion. Verification of any sequenced insertion line is necessary, and can be performed using these primers.
Ds5'-1a : ACGGTCGGGAAACTAGCTCTAC
Ds5'-2a : TCCGTTCCGTTTTCGTTTTTTAC
Ds5'-3a : CGGTCGGTACGGGTTTTCC
Ds5'-4 : CTCGGGTTCGAAATCGATCGGGAT
Ds3'-1a : GGTTCCCGTCCGATTTCGACT
Ds3'-2a : CGATTACCGTATTTATCCCGTTC
Ds3'-3a : TCGTTTCCGTCCCGCAAGT
Spm5-1: 5’-GGT GTG GAA AAA CCC ACA CTC
Spm5-2: 5’-GCG TCG GTT TCA TCG GGA CC
Spm5-3: 5’-CTC TTT AAT TAA CTG ACA CTC C
Spm3-1: 5’-GTC GGT CCC CAC ACT TCT ATA CG
Spm3-2: 5’-GAG CGT CCA TTT TAG AGT GAC
Spm3-3: 5’-GTG TGG GGT TTT GGC CGA CAC
The starter lines for these insertion lines were created using Agrobacterium tumefaciens mediated transformation.
Please note that these lines are not T-DNA insertion lines. They are stable transposon insertion lines. The transposon
insertion has been segregated away from the T-DNA that was used in transformation.