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Table 1 CArG-box sequences found in the promoters of ripening-induced genes.

From: Identification of potential target genes for the tomato fruit-ripening regulator RIN by chromatin immunoprecipitation

Site CArG-box and its flanking sequences (5' to 3')1) Motif 2) CArG-box position (bps)3)
ACS2-a4) AGCTATT- CTAAAAAAAG -TATCACATA5) Possible X59139 (1,365 - 1,374) (+)
ACS2-b AAATGCAC- CCTAAATTAG -TCAAATAT5) Possible X59139 (2,654 - 2,663) (+)
ACS4-a ATCAAACA- CAAATATAAG -TTTGGAAC5) Atypical M88487 (567 - 576) (+)
ACS4-b ATTAAACA- CAATTTTAAG -AAACTTTT5) Atypical M88487 (1,201 - 1,210) (+)
ACS4-c TGAAATAT- CTAGTTAAAG -ATATGTAC5) Atypical M88487 (1,802 - 1,811) (+)
ACO1 GGTTGAAT- CTATAAAAAG -AAAAATAT Possible X58273 (1,285 - 1,294) (+)
ETR3-a GGAGAAAT- CCTATAATAG -GGCAAACA Intermediate AY600437 (3,121 - 3,130) (+)
  GAGAAATC- CTATAATAGG -GCAAACAC Possible AY600437 (3,122 - 3,131) (+)
  GGCAAACA- CCAAAAATAG -CTTGGAGT Intermediate AY600437 (3,139 - 3,148) (+)
ETR3-b AAATTTCA- CTTAATATGG -ACTAGAGA Possible AY600437 (3,745 - 3,754) (+)
PG-a GCACCAAT- CTAATTTAGG -TTGAGCCG Possible scaffold01076 (1,534,540 - 1,534,549) (-)
PG-b CTTAAAAT- CTATAAATAG -ACAAACCC MEF2-like scaffold01076 (1,533,632 - 1,533,641) (-)
TBG4-a TATATGCT- CTATTTTTGG -ACGGCAGG5) Possible scaffold00061 (457,025 - 457,034) (+)
TBG4-b TTTGGGCC- CCATTTAAGG -GATTGGGC5) SRF-like scaffold00061 (457,311 - 457,320) (+)
EXP1-a TTATTTTA- CATTTATATG -TTATTATT Atypical scaffold00114 (3,118,161 - 3,118,170) (-)
EXP1-b TGATGCTT- CAATTTAAAG -AAAATAAA5) Atypical scaffold00114 (3,117,729 - 3,117,738) (-)
MAN4 TTTCTTTT- CCATTTATAG -AAAAACCA5) Intermediate scaffold01157 (9,316,653 - 9,316,662) (-)
PSY1 TATGTGTA- CCAAAATTAG -AAAATCAG Intermediate scaffold00066 (364,464 - 364,473) (+)
  CTTGTTGA- CTAAATATAG -AATGCATC MEF2-like scaffold00066 (364,504 - 364,513) (+)
INV TTATGATA- CTTAATATGG -TAATCTTT Possible Z12027 (1,634 - 1,643) (+)
  TTCTCACT- CTATAAATAG -AGTTGTTC MEF2-like Z12027 (1,667 - 1,676) (+)
RIN-a GTTGCACT- CTAAAAAAAG -TTAAAAGG5) Possible scaffold00243 (210,835 - 210,844) (-)
RIN-b ACAAAGAA- CCATTAAAAG -GTTAAAAA5) Intermediate scaffold00243 (210,262 - 210,271) (-)
  1. 1) CArG-box sequences are underlined.
  2. 2) CArG-box sequences in the exhibited strand were grouped into motifs. Groups of the motif sequences are referenced in the text.
  3. 3) Scaffolds followed by Arabic numerals indicate that the sequences originate from WGS data. Symbols + and - in parentheses indicate that the CArG boxes displayed are presented in either the exhibited (+) or complementary (-) strands.
  4. 4) Site was previously described [6].
  5. 5) Sequences were used for in vitro gel retardation assays.