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Table 1 CODEHOP primers used for CYP98s amplification. For each primer the consensus clamp (XXX.XXX) is given in upper case and degenerate core (xxx.xxx) in lower case. y = [C, T], n = [A, G, C, T], s = [G, C], r = [A, G]. BLASTp analysis was performed with the consensus protein sequence corresponding to each primer. Hits: best scoring P450, with expectation values lower than 0.1, are listed in the order of scores.

From: Conservation and diversity of gene families explored using the CODEHOP strategy in higher plants

Primer

Sequence

Protein consensus

BLASTp hits on P450 database (1)

Expected size of PCR product (bp)

Sense

    

   P98a

TC.ACC.GTC.GAG.tgg.gcn.atg.gc

ITVEWAMA

98/76/93/81/79/71/705

270

   P98c

G.GTG.CAG.GAG.AAG.GTG.car.san.gar.yt

RVQEKVQEEL

98/78

220

   P98d

G.GTG.CAG.CAG.AAG.GTC.CAG.san.gar.ytn.ga

RVQQKVQEELD

98/78/703/96/73

220

Reverse

    

   P98cr

C.CCG.GGC.GAT.Ggc.yyr.nac.rtt

NVWAIARD

98/75/93/76/71/78/83/92/706

 
  1. (1) BLASTp parameters: Matrix PAM40/Expectation Value (E)10.