Skip to main content

Table 3 Partial list of recently annotated regulatory sequences from rice based on recent updates in public cis-element and transcription factor databases

From: Upstream regulatory architecture of rice genes: summarizing the baseline towards genus-wide comparative analysis of regulatory networks and allele mining

Cis-element

Consensus core motif

Transcriptional regulator

Biological function

AACA element

AACAAAC

OsMYB5

Regulator of endosperm-specific expression

ABRE

GTACGTGGCGC

Unknown

Positive regulator of GA response; Negative regulator of ABA response

 

ACGTGKC

Unknown

ABA-response element for ABA regulated gene expression

 

GCCGCGTGGC

Unknown

ABA-response element for ABA regulated gene expression

 

AGTACGTGGC

Unknown

ABA-response element for ABA regulated gene expression

ABRE/hex-3

GGACGCGTGGC

OsABF1

ABA-response element for ABA regulated gene expression

ABRE-like

TACGTGTC

OsTRAB1

ABA-response element for ABA regulated gene expression

G-box

RTACGTGGCR

OsTAF-1

Positive regulator for response to ABA and desiccation in vegetative tissues

 

CTTCCACGTGGCA

OsBZ8

ABA-response element for ABA regulated gene expression

RY repeat

CATGCATG

Unknown

ABA-response element for ABA regulated gene expression

AH1 element

CAATTATTG

OsHox1

Enhancer of provascular-specific expression

ARR1 element

AGATT

OsARR1

Non-symbiotic hemoglobin-2 promoter

as1-like

GCATCTTTACTTTAGCATC

as1-like box binding factor

Phloem-specific expression

IIb element

TGTGGGACCATG

OsPCF1, OsPCF2

Enhancer of meristem-specific expression

BIHD1OS element

TGTCA

OsBIHD1

Pathogen-regulated expression

BP-73 element

AACGT

OsBP-73

Regulation of cell proliferation

E2F element

GCGGGAAA

OsE2F

Enhancer in actively dividing cells

GATA box

GATA

OsASF-2

Light regulated expression

GCC-box

AGCCGCC

OsEREBP1

Pathogen-regulated expression

 

CATAAGAGCCGCCACT

OsBIERF3

Response to biotic and abiotic stress

IDE1 element

ATCAAGCATGCTTCTTGC

OsIDE1, OsIDE2

Iron deficiency regulated expression

OsIRO2 element

CACGTGG

OsIRO2

Iron deficiency regulated expression

PR2 element

ACGCTGCCG

OsWOX9

Root meristem-specific expression

TGTCA element

TGTCA

OsBIHD1

Pathogen-regulated expression

W-box

TTGAC

OsWRKY13, OsWRKY51, OsWRKY71

Pathogen-regulated expression