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Table 1 Hypothetical RNA targets of chloroplastic PPR proteins of A. angustifolia

From: Chloroplastic pentatricopeptide repeat proteins (PPR) in albino plantlets of Agave angustifolia Haw. reveal unexpected behavior

Transcript ID Regular expression RNA targets RNA target sequence
AaPPR1 U[AU]UUU[AU]U[CAU][AC]U[AU]UU[ACGU][ACGU] ycf1 (CDS) 5′-UAUUUUUCAUUUUCA-3’
AaPPR2 [ACGU][ACGU][UCG][AU][UCG][UCG]A[UCG]G[UCG][AU]GAU[ACGU] rpoC1 (intron) 5′-UCUUUUAGGGAGAUA-3’
rps12* (intron) 5′-GCUUGGAGGGAGAUC-3’
AaPPR5 [ACGU][CG]A[AU]GAAAA[AU]G[ACGU][AU]A[ACGU][GU] trnK-UUU (intron) 5′-AGAAGAAAAUGGAAUU-3’
AaPPR6 [UC][GC][GC]A[CU][CA]UAG[GU] rps16 (intron) 5′-UCGACAUAGU-3’
petN (CDS) 5′-UGGAUAUAGU-3’
atpE (CDS) 5′-UGGAUAUAGG-3’
AaPPR10 [ACGU]C[ACGU]UUCC[ACGU]CC rpoC1 (CDS) 5′-UCCUUCCUCC-3’
psbC (CDS) 5′-GCGUUCCCCC-3’
petA (CDS) 5′-UCUUUCCCCC-3’
rrn23* (exon) 5′-GCGUUCCGCC-3’
AaPPR11 [UC][UC][ACGU]A[ACGU]U[ACGU][ACGU][ACGU][ACGU][ACGU][ACGU]C[ACGU][UC]UCUU[CU]U ycf2* (CDS) 5′-UUCAAUCCUUUUCCUUCUUCU-3’
AaPPR13 [GU][ACGU][ACGU]C[ACGU][ACGU]G[ACGU][ACGU][ACGU]AUGU atpA (CDS) 5′-UAUCCAGGAGAUGU-3’
rps14 (CDS) 5′-UGGCAAGAAAAUGU-3’
trnI-GAU* (intron) 5′-UGACCCGGAGAUGU-3’
ycf1 (CDS) 5′-UCUCAAGCAUAUGU-3’
AaPPR15 UUG[CU]CGC rbcL (CDS) 5′-UUGCCGC-3’
rpl33 (CDS) 5′-UUGUCGC-3’
AaPPR18 UC[GC]UAU[AU][CU][ACGU]G ycf2* (CDS) 5′-UCCUAUACGG-3’
psbD (CDS) 5′-UCCUAUUUGG-3’
psbC (CDS) 5′-UCGUAUUCUG-3’
psaB (CDS) 5′-UCGUAUUUGG-3’
ndhG (CDS) 5′-UCCUAUUUUG-3’
  1. CDS coding sequence
  2. []: character group, e.g. [AGCU] match the characters A,G,C and U; asterisk (*): RNAs generated from duplicated genes present in the inverted repeats (IR) regions of the A. angustifolia chloroplast genome