Supplementary Table 3. Regulatory motifs conserved between barley and wheat VRN1 alleles in the 1 kb core region of intron 1 that is associated with repression of VRN1 in non-vernalized plants.

Motif / ID / Known functional associations
NGATT / S000454 / Arabidopsis thaliana ARR1type B response regulator binding site (cytokinin signaling)
CAAT / S000028 / CAAT-box, CAAT-box binding factor binding site (promoter element)
YACT / S000449 / Mesophyll specific expression of the Flaveria trinervia C4 phosphoenolpyruvate carboxylase gene (promoter element)
RYCGAC / S000497 / Hordeum vulgareCBF/DREB (C-repeat binding factor/dehydration responsive element binding protein) binding site (cold tolerance and drought stress)
AAAG / S000265 / Zea maize Dof transcription factor binding site
GANTTNC / S000494 / Chlamydomonas reinhardtii MYB transcription factor LCR1 binding site
GATA / S000039 / GATA transcription factor binding site
GRWAAW / S000198 / GT transcription factor binding site
GTGA / S000378 / Pollen specific expression of Nicotiana tabacumg10 gene (promoter element)
GATAA / S000199 / I-box, conserved sequence upstream of light regulated gene
AATAAAYAAA / S000063 / A-box found in scaffold/matrix attachment regions (S/MARs) (structural organization of chromatin)
WAACCA / S000408 / A. thalianaMYB recognition site (dehydration response, abscisic acid signaling)
YAACKG / S000409 / A. thalianaMYB recognition site (dehydration response, abscisic acid signaling)
CNGTTR / S000176 / A. thalianaMYB recognition site (dehydration response)
AATAAA / S000080 / mRNA polyadenylation signal
AGAAA / S000245 / Pollen specific expression of Lycopersicum esculentumlat52 gene (promoter element)
CAACA / S000314 / A. thaliana RAV1 transcription factor binding site
ATATT / S000098 / Agrobacterium rhizogenes rolD promoter sequence
TAAAG / S000387 / Solanum tuberosum Dof transcription factor binding site (guard cell specific gene expression)
TTATTT / S000203 / TATA-box
TATTTAA / S000400 / Oryzae sativa TBP2 binding site
TGACY / S000457 / W-box, N. tabacumERF3 transcriptional repressor promoter sequence (wounding/defense responses)
TGAC / S000447 / W-box,WRKY transcription factor binding site (GA signaling)

N=G/A/C/T, Y=T/C, R=A/G, W=A/T