Skip to main content

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

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

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. 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. 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. 3) Positions on the WGS are displayed.