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Table 4 Consensus cis -regulatory elements of differentially expressed specific genes in two tolerant NILs under different WD treatments

From: Transcriptional profiling of the leaves of near-isogenic rice lines with contrasting drought tolerance at the reproductive stage in response to water deficit

IR77298-14-1-2-B-10

IR77298-5-6-B-18

Motif

Matching to

Lift

Confidence

Motif

Matching to

Lift

Confidence

Up-regulated

 Severe water-deficit

       

  (AGATT){2}

Myb

1.89

0.014

(TGAGTCAG){1,2}

MADS(AP1)

1.504

0.038

  (CTGACTCA){1,2}

Unkown

1.737

0.045

([TGCA]TTC[TGCA]){3}

Unkown

2.272

0.075

  ([CT]AAC[GT]G){2}

Myb

2.109

0.005

ATGTCCGTA

Unkown

1.814

0.005

  ATGTCCGTA

Unkown

1.52

0.005

CAAT[AT]ATTG

HD-ZIP

1.892

0.054

  GACAAGT GGC

Unkown

6.667

0.009

CAAT[TA]ATTG

Unkown

1.892

0.054

  GGTACTAACCA

Unkown

12.92

0.005

GACAAGTGGC

Unkown

7.958

0.011

  TGACAGTGTCA

ACE2

8.612

0.005

GCAC[AG][ACGT][AT]TCCC[AG]A[ACGT]G[CT]

AP2;YABBY

13.705

0.005

  TGGTTAGTACC

TFIIIA

11.48

0.005

TTGTACG[TGCA]A

Unkown

2.548

0.054

  T[ACGT]CGTACAA

SBP

2.363

0.05

T[ACGT]CGTACAA

SBP

1.795

0.038

  [GA]C[TGCA]T[TC]GGGA[TA][TGCA][TC]GTGC

Unkown

20.67

0.005

    

 Mild water-deficit

  (C[CA]GTT[GA]){2}

Unkown

3.271

0.006

(AATCT){2}

Unkown

2.747

0.023

  ATGTCCGTA

Unkown

2.02

0.006

(C[CA]GTT[GA]){2}

Unkown

3.139

0.006

  GCAC[AG][ACGT][AT]TCCC[AG]A[ACGT]G[CT]

AP2;YABBY

7.632

0.003

CAAT[CG]ATTG

Unkown

2.087

0.034

  GGCTAATAA

Plant C2H2

2.252

0.018

CAAT[GC]ATTG

HD-ZIP

2.087

0.034

  TGACAGTGTCA

ACE2

5.724

0.003

GCAC[AG][ACGT][AT]TCCC[AG]A[ACGT]G[CT]

AP2;YABBY

14.65

0.006

  TGACA[ACGT][ACGT][ACGT][ACGT]TGTCA

WHIRLY

2.369

0.006

GTCAAAA[AT]

WHIRLY;WRKY

1.52

0.213

  TGACA[TGCA][TGCA][TGCA][TGCA]TGTCA

Unkown

2.369

0.006

TACGGACAT

AP2

1.806

0.006

    

TGACA[ACGT][ACGT][ACGT][ACGT]TGTCA

WHIRLY

2.273

0.006

    

TGACA[TGCA][TGCA][TGCA][TGCA]TGTCA

Unkown

2.273

0.006

Down-regulated

 Severe water-deficit

  (AATCT){2}

Unkown

1.81

0.015

([ACGT]GAA[ACGT]){3}

HSF

1.882

0.072

  (CTGACTCA){1,2}

Unkown

2.045

0.053

([CT]AAC[GT]G){2}

Myb

5.641

0.012

  CAAT[AT]ATTG

HD-ZIP

1.866

0.053

ATGTCCGTA

Unkown

8.13

0.024

  CAAT[TA]ATTG

Unkown

1.866

0.053

CAAT[CG]ATTG

Unkown

1.823

0.03

  GCGT[ACGT]{7}ACGC

VOZ-9

2.705

0.03

CAAT[GC]ATTG

HD-ZIP

1.823

0.03

  GCGT[TGCA]{7}ACGC

Unkown

2.705

0.03

GACAAGTGGC

Unkown

4.458

0.006

  TGACA[ACGT][ACGT][ACGT][ACGT]TGTCA

WHIRLY

2.997

0.008

GCGT[ACGT]{7}ACGC

VOZ-9

2.151

0.024

  TGACA[TGCA][TGCA][TGCA][TGCA]TGTCA

Unkown

2.997

0.008

GCGT[TGCA]{7}ACGC

Unkown

2.151

0.024

  TTATTAGCC

Unkown

2.021

0.015

TACGGACAT

AP2

3.786

0.012

  TTGTACG[TGCA]A

Unkown

1.795

0.038

TGACA[ACGT][ACGT][ACGT][ACGT]TGTCA

WHIRLY

2.383

0.006

    

TGACA[TGCA][TGCA][TGCA][TGCA]TGTCA

Unkown

2.383

0.006

    

TTATTAGCC

Unkown

1.607

0.012

 Mild water-deficit

  (AGATT){2}

Myb

1.525

0.011

([CG]GCGC[GC]){2}

Fork head

1.593

0.051

  ([CG]GCGC[GC]){2}

Fork head

1.541

0.049

CAAT[CG]ATTG

Unkown

1.674

0.028

  CAAT[CG]ATTG

Unkown

1.979

0.033

CAAT[GC]ATTG

HD-ZIP

1.674

0.028

  CAAT[GC]ATTG

HD-ZIP

1.979

0.033

GACAAGTGGC

Unkown

3.41

0.005

  GACAAGTGGC

Unkown

2.017

0.003

TACGGACAT

AP2

2.897

0.009

  TGACAGTGTCA

ACE2

5.209

0.003

TGACA[ACGT][ACGT][ACGT][ACGT]TGTCA

WHIRLY

1.823

0.005

  T[ACGT]CGTACAA

SBP

1.56

0.033

TGACA[TGCA][TGCA][TGCA][TGCA]TGTCA

Unkown

1.823

0.005

    

TTGTACG[TGCA]A

Unkown

1.529

0.032

  1. Motif: Examined sequences. Matching to: Destination from built in list of known plant cis -element of which the examined motif matches to. Lift, Confidence: Index of association rule analysis
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BMC Genomics

ISSN: 1471-2164

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