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Table 2 Important motifs identified in the GSL1 promoter region

From: Structure and expression of GSL1 and GSL2 genes encoding gibberellin stimulated-like proteins in diploid and highly heterozygous tetraploid potato reveals their highly conserved and essential status

Motif number

Related function

ID/IUPAC

Motif sequence

Organism described

Sequence in DM

Position

Strand

Polymorphism for disrupted motifsa

Start

End

      

Start

End

  

1

Disease responsive

BIHD1OS

TGTCA

Oryza sativa

TGTCA

-1024

-1028

-

CKSV

TGTCA

-878

-874

+

TGTCA

-873

-869

+

TGTCA

-385

-389

-

TGTCA

-110

-106

+

2

Pathogen- and salt- induced expression (GT-1 motif)

GT1GMSCAM4

GAAAAA

Glycine max

GAAAAA

-1678

-1673

+

 

GAAAAA

-1069

-1064

+

GAAAAA

-918

-923

-

GAAAAA

-826

-821

+

C#

GAAAAA

-706

-701

+

S#V#

GAAAAA

-505

-500

+

C#SV

3

Light regulated (I box/I-box)

IBOXCORE

GATAA

Angiosperms

GATAA

-1834

-1838

-

 

GATAA

-1545

-1541

+

CKSV

GATAA

-1483

-1487

-

S#V#

GATAA

-1463

-1459

+

CKSV

GATAA

-1242

-1238

+

C

GATAA

-1121

-1117

+

 

GATAA

-1109

-1105

+

GATAA

-834

-830

+

GATAA

-537

-541

-

GATAA

-235

-239

-

CKSV

GATAA

-117

-121

-

K#

4

Dehydration response (MYB recognition site)

MYB1AT

WAACCA

Arabidopsis thaliana

AAACCA

-1927

-1922

+

V#

AAACCA

-703

-698

+

S#V#

TAACCA

-173

-168

+

 

AAACCA

-15

-10

+

5

Transcriptional activator (core motif of MybSt1, a potato MYB homolog binding site)

MYBST1

GGATA

Solanum tuberosum

GGATA

-1556

-1552

+

CKSV

GGATA

-1299

-1303

-

 

GGATA

-1122

-1118

+

GGATA

-835

-831

+

GGATA

-116

-120

-

K#

6

Rosette leaf- and root-specific

RAV1AAT

CAACA

Arabidopsis thaliana

CAACA

-1834

-1830

+

 

CAACA

-1320

-1316

+

CAACA

-1242

-1246

-

CAACA

-981

-977

+

CAACA

-339

-335

+

CAACA

-281

-285

-

CAACA

-169

-165

+

7

Axillary bud-specific (sugar-repressive element)

SREATMSD

TTATCC

Arabidopsis thaliana

TTATCC

-1117

-1122

-

 

TTATCC

-830

-835

-

TTATCC

-121

-116

+

K#

8

Root apical meristem-specific

WUSATAg

TTAATGG

Oryza sativa

TTAATGG

-15

-21

-

 
  1. Analysis used Genomatix-MatInspector [41] based on PLACE [42]. The approximate positions of the motif numbers are indicated on Figure 1A. aAll four tetraploid genotypes contained all motifs. However, allelic polymorphisms involving SNPs were occasionally observed in some motifs of these genotypes as indicated by C (1021/1), K (Karaka), S (Summer Delight), and V (VTn62-33-3). #indicates an indel in the motif of at least one allele of the indicated genotype.
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BMC Genomics

ISSN: 1471-2164

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