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Table 4 Enrichment of putative MYB-target cis-elements in promoters of chilling upregulated genes.

From: Transcriptional regulatory network triggered by oxidative signals configures the early response mechanisms of japonica rice to chilling stress

Cluster Motif Putative elementa Associated class of MYB (putative)b % (TIC)c e-value
C100A AAAACCAT MYB2-box-like R2R3-MYB 75 (11.59) 6e-004
  CTTTTGTT GA response element-like R1-MYB/R2R3-MYB 60 (12.03) 1e-004
  TGTGGAAG Pyrimidine box-like R1-MYB/R2R3-MYB 55 (11.66) 3e-004
  TGTGGAAG MYB2-box-like R2R3-MYB 52 (13.26) 6e-005
C99 CATTTGTT GA response element-like R1-MYB/R2R3-MYB 64 (12.23) 2e-004
  GCTGTGGT Pyrimidine box-like R1-MYB/R2R3-MYB 56 (11.26) 3e-004
C99A TTTTTTCA Pyrimidine box-like R1-MYB/R2R3-MYB 63 (13.88) 3e-004
  G(A8) Pyrimidine box-like R1-MYB/R2R3-MYB 63 (13.88) 6e-005
C97 (c/t)(A7) Pyrimidine box-like R1-MYB/R2R3-MYB 73 (16.75) 2e-004
  TAA(T6) Pyrimidine box-like R1-MYB/R2R3-MYB 67 (14.37) 4e-004
C97A AAAATCAA MYB2-box-like R2R3-MYB 71 (12.93) 4e-004
  AAAGAAAAA Pyrimidine box-like R1-MYB/R2R3-MYB 66 (15.13) 2e-004
  ACACAAAC GA response element-like R1-MYB/R2R3-MYB 59 (11.48) 2e-004
  TTCTTGCT GA response element-like R1-MYB/R2R3-MYB 59 (11.92) 2e-004
  TTTTTTTTAA Pyrimidine box-like R1-MYB/R2R3-MYB 59 (16.60) 2e-005
  TTGTTTTGT GA response element-like R1-MYB/R2R3-MYB 57 (12.93) 3e-004
  ATTTAACA GA response element-like R1-MYB/R2R3-MYB 55 (11.99) 3e-004
  GCTGCTGC GA response element-like R1-MYB/R2R3-MYB 50 (12.99) 8e-004
C94 TAGTTTTT MYB1-box-like R2R3-MYB 70 (11.74) 2e-004
  CTCCCTCCG GA response element-like R1-MYB/R2R3-MYB 57 (13.64) 2e-004
  AGCTGGAG GA response element-like R1-MYB/R2R3-MYB 55 (12.00) 9e-005
  AGCATTTG GA response element-like R1-MYB/R2R3-MYB 51 (12.29) 5e-004
C91 TTCTTTTTTT Pyrimidine box-like R1-MYB/R2R3-MYB 58 (15.52) 4e-004
  TTAGGGTTT MYB2-box-like R2R3-MYB 58 (12.70) 2e-004
C90A TTTTTTCA Pyrimidine box-like R1-MYB/R2R3-MYB 63 (13.45) 4e-004
  AAATCCAA GA response element-like R1-MYB/R2R3-MYB 57 (12.72) 1e-003
  TTAGTTTAT MYB1-box-like R2R3-MYB 52 (12.89) 2e-004
  TTGTTTTT GA response element-like R1-MYB/R2R3-MYB 51 (13.14) 2e-004
C88A GAAACCAT MYB2-box-like R2R3-MYB 78 (11.18) 1e-004
  CGGTGGAT MCB1/MCB2-like R2R3-MYB 73 (11.07) 1e-004
  TTTTTTCA Pyrimidine box-like R1-MYB/R2R3-MYB 69 (13.14 6e-004
  AAACCCAA GA response element-like R1-MYB/R2R3-MYB 63 (12.32 2e-004
  GGGGATCG MYB2-box-like R2R3-MYB 58 (11.82) 1e-004
  GAAACCAT MYB2-box-like R2R3-MYB 58 (11.95) 1e-004
  GTGATTAGC MYB2-box-like R2R3-MYB 55 (11.32) 9e-004
  G(T8) Pyrimidine box-like R1-MYB/R2R3-MYB 52 (14.78) 7e-004
  AGCTGGAG GA response element-like R1-MYB/R2R3-MYB 50 (11.89) 1e-004
C87A TAAGTTTT Pyrimidine box-like R1-MYB/R2R3-MYB 65 (12.65) 8e-004
  AACAATTT GA response element-like R1-MYB/R2R3-MYB 63 (11.80) 5e-004
  AAACCATG MYB2-box-like R2R3-MYB 61 (12.27) 8e-004
  GTTTTTTTT Pyrimidine box-like R1-MYB/R2R3-MYB 54 (15.01) 4e-004
  ATATTTCC Pyrimidine box-like R1-MYB/R2R3-MYB 50 (12.51) 6e-004
C86 AAATCCAA MYB2-box-like R2R3-MYB 60 (12.33) 3e-004
  AACCATGG MYB2-box-like R2R3-MYB 60 (11.10) 3e-004
C86A TTTTTTCA Pyrimidine box-like R1-MYB/R2R3-MYB 72 (13.48) 3e-004
  TTTTTATT Pyrimidine box-like R1-MYB/R2R3-MYB 68 (14.18) 2e-004
  ATCATTTT Pyrimidine box-like R1-MYB/R2R3-MYB 62 (12.27) 7e-004
  TCCCTTTT Pyrimidine box-like R1-MYB/R2R3-MYB 57 (13.18) 7e-004
  ACATTTTT Pyrimidine box-like R1-MYB/R2R3-MYB 50 (13.18) 2e-004
C83 GGAAAAAA Pyrimidine box-like R1-MYB/R2R3-MYB 67 (13.45) 4e-004
C83A GAAAAAGG Pyrimidine box-like R1-MYB/R2R3-MYB 61 (11.91) 4e-004
C80 AAATCCTT GA response element-like R1-MYB/R2R3-MYB 72 (11.89) 8e-005
  TTTTTTCA Pyrimidine box-like R1-MYB/R2R3-MYB 55 (13.28) 4e-004
  TTTTCAAT Pyrimidine box-like R1-MYB/R2R3-MYB 53 (12.23) 2e-003
C81 (c/g)(A9) Pyrimidine box-like R1-MYB/R2R3-MYB 68 (15.62) 3e-004
' GG(A6) Pyrimidine box-like R1-MYB/R2R3-MYB 64 (13.23) 4e-004
  (c/g)AT(A5) Pyrimidine box-like R1-MYB/R2R3-MYB 61 (12.19) 3e-004
  ATATTTTC Pyrimidine box-like R1-MYB/R2R3-MYB 54 (12.51) 4e-004
C79 TTTTTTCA Pyrimidine box-like R1-MYB/R2R3-MYB 65 (13.14) 2e-003
  GTGATATC Pyrimidine box-like R1-MYB/R2R3-MYB 62 (11.12) 6e-004
  CATCTTTT GA response element-like R1-MYB/R2R3-MYB 53 (12.53) 3e-004
  ATTAAATTA Pyrimidine box-like R1-MYB/R2R3-MYB 53 (13.65) 3e-004
C78 TTAGGTTTT MYB2-box-like R2R3-MYB 68 (12.28) 4e-004
  CATTTGTT GA response element-like R1-MYB/R2R3-MYB 64 (12.23) 2e-004
  GCTGTGGT Pyrimidine box-like R1-MYB/R2R3-MYB 56 (11.26) 3e-004
  1. aHomology with motifs identified in other plant species (TRANSFAC, PLACE and AGRIS databases).
  2. bPossible classes of associated MYB proteins based on recent phylogenetic classifications [50] and co-expression.
  3. cPercent occurrence in critical promoters relative to background sequences (Total Information Content).