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

Table 2 CArG-box sequences found in regions for which IPed DNAs were mapped.

CArG-box site	CArG-box and its flanking sequences (5' to 3')¹⁾	Motif (strand)²⁾	CArG-box position (bps)³⁾
009F	CCTAAATA- CTATTATAAG -AATGATCA	Possible (+, -)	scaffold01172 (3,039,503 - 3,039,512)
016	GTACAGCA- CCAAAATTGG -CGACCACA	SRF-like (+, -)	scaffold01172 (4,647,499 - 4,647,508)
027R	AACTCTCC- CCTATATTGG -TGCTCAAT	SRF-like (+, -)	scaffold00008 (1,340,392 - 1,340,401)
042F	GATAGATC- CTAATTTTGG -TAAGTGAC	Possible (+), Intermediate (-)	scaffold00077 (3,770,305 - 3,770,314)
046F_1	CTTTTGGG- CTTAATTTAG -GGATTTAC	Possible (+, -)	scaffold00162 (1,604,081 - 1,604,090)
046F_2	ACATTTTT- CCATATTTAG -TACTAGAT	Intermediate (+), Possible (-)	scaffold00162 (1,604,514 - 1,604,523)
066F	ACTAGCAA- CTATTATAGG -GCCCTCCT	Possible (+), Intermediate (-)	scaffold00041 (5,908,092 - 5,908,101)
073F	AAAGTCCC- CTTTTTTTGG -AAAAATAC	Possible (+, -)	scaffold00885 (1,175,686 - 1,175,695)
090R	TATATTGT- CTATTATAGG -GGACGGTC	Possible (+), Intermediate (-)	scaffold00235 (679,848 - 679,857)
100_1	GCTGGATT- CTATTATAAG -GACATCAT	Possible (+, -)	scaffold00073 (9,132 - 9,141)
100_2	GCCAGATT- CCTATATTAG -CAGTATAG	Intermediate (+), Possible (-)	scaffold00073 (8,936 - 8,945)
128R	CTTCATAC- CTTAATTAAG -CAACCTTA	Possible (+, -)	scaffold00183 (1,735,586 - 1,735,595)
133R	AGAAAATG- CCATTTTTGG -AAGGAAGA	SRF-like (+, -)	scaffold00103 (1,409,234 - 1,409,243)

1) CArG-box sequences are underlined. Sequences displayed are the same strand as the WGS data (version 1.03) released by SGN. They were used for in vitro gel retardation assay.
2) Symbols + and - in parentheses indicate that the CArG-box sequences in the exhibited (+) or complementary (-) strands could be grouped into the motifs. Groups of the motif sequences are referenced in the text.
3) Positions on the WGS are displayed.

ISSN: 1471-2229