Table 4 Known cis -regulatory elements (CREs) in the promoter regions of NP-like genes within Populus trichocarpa identified by the motif prediction programs MEME and MotifClick (MC), CRE database and the transcription factors and/or functions
CRE name | Prediction Program | CRE database | Transcription factor/function |
|---|---|---|---|
AG | MC | TRANSFAC | AGAMOUS, expressed in flowers |
MEME | |||
AGL3 | MEME | TRANSFAC | AGAMOUS-like (AGL) 3, expressed in vegetative and floral above ground tissue |
MC | |||
ANT | MEME | TRANSFAC | ANT (a member of AP2/EREBP TFs) |
ARR10 | MC | JASPER | ARR10, involved in 2 component regulation and possibly cytokinin signaling |
Athb-1 | MC | TRANSFAC | AtHB-1, involved in cell differentiation in leaves, expressed in leaves |
Athb-5 | MC | TRANSFAC | AtHB-5, expressed in vegetative tissues, preferentially in leaf tissues. Function in mature vegetative tissues. |
Athb-9 | MC | TRANSFAC | AtHB-9, possibly involved in dorsiventral patterning of lateral organs (leaves). |
MEME | |||
bZIP910 | MC | TRANSFAC | BZIP transcript factor from snapdragon. |
C8GCARGAT | MC | PLACE | AGL15, possibly involved in gibberellin metabolic signaling. |
CARGCW8GAT | MC | PLACE | AGL15, possibly involved in gibberellin metabolic signaling. |
CDC5 | MEME | TRANSFAC | AtCDC5, required for function of shoot apical meristem. Silencing accelerates cell death in leaves. Possibly involved in cell cycle regulation. |
CIACADIANLELHC | MC | PLACE | Region necessary for circadian expression of light harvesting complex genes |
ERELEE4 | MC | PLACE | Ethylene responsive element, senescence-related expression |
GMHDLGMVSPB | MC | PLACE | GmHdl56/GmHd157, found in the promoter vegetative storage protein conferring function vacuolar glycoprotein acid phosphatase in soybean |
HMG-IY | MEME | JASPER | Binding regions for proteins similar to histone H1/H5 family |
MYB.ph3 | MC | JASPER | MYB.ph3, petal epidermis-specific, possibly GA regulated and may bind chromatin |
TRANSFAC | |||
O2 | MC | TRANSFAC | Opaque-2, found in Maize endosperm |
MEME | |||
PIF3 | MEME | TRANSFAC | PIF3, present in many light-regulated promoters, including PhyB |
RAV1 | MC | TRANSFAC | RAV1, may be negative regulator of plant development, down regulated by brassinosteroids. Touch-, drought-, salt- cold-, bacteria-induced. Positively regulates leaf senescence. Ethylene mediated signaling. |
MEME | |||
RYREPEATVFLEB4 | MEME | PLACE | FUS3/TRAB1, ABA and auxin responsive, found in seed proteins |
SQUA | MC | JASPER | SQUA, required for inflorescence development |
UPRE2AT | MEME | PLACE | Found in promoters of many genes associated with ER stress |
UPRMOTIFIAT | MEME | PLACE | Â |