Table 1.

Transcripts whose function is environmentally controlled via their UTRs

Transcripta	Regulatory mechanism	Environmental stimulus	Developmental/physiological output	Reference
AKR2	APA	Salinity	Salt tolerance	Yu et al. (2019)
AT3G47610	APA	Salinity	Salt tolerance	Yu et al. (2019)
ATHB1	uORF	Light	Leaf development	Ribone et al. (2017)
CO	m6A methylation	Light	Flowering	Wang et al. (2022)
COOLAIR	APA	Temperature	Flowering	Csorba et al. (2014)
CORG1	RNA structure	Temperature	Root growth	Yang et al. (2022)
CRY2	m6A methylation	Light	Hypocotyl elongation; flowering	Wang et al. (2022)
DGAT1	m6A methylation	Cold	Growth	S. Wang et al. (2023)
FLC	m6A methylation	Light	Flowering	Wang et al. (2022)
FLM	AS	Temperature	Flowering	Posé et al. (2013); Sureshkumar et al. (2016)
HSFB1	uORF	Temperature	Heat shock response	Zhu et al. (2012)
LHY	AS	Temperature	Circadian clock	James et al. (2018a)
NIP5:1	uORF	Boron	Boron tolerance	Tanaka et al. (2016)
OsPHO1.2	Interaction with cis-NATPHO1.2; RNA structure	Phosphate	Phosphate homeostasis	Reis et al. (2021)
PHO2	Interaction with miR399	Phosphate; temperature	Phosphate acquisition; flowering	Bari et al. (2006); Chiou et al. (2006); Kim et al. (2011)
PIF3	AS, uORF	Light	Hypocotyl elongation	Dong et al. (2020).
PIF4	m6A methylation	Light	Hypocotyl elongation; flowering	Wang et al. (2022)
PIF7	RNA structure	Temperature	Elongation growth; stomata formation	Chung et al. (2023)
PORA	Interaction with PNT1 and phytochrome	Light	Chlorophyll biosynthesis	Paik et al. (2012)
PSY	AS	Light; salinity	Carotenoid biosynthesis	Álvarez et al. (2016)
SaHKT1	APA	Salinity	Salt tolerance	T. Wang et al. (2023)
SOC1	Interaction with BRN1/BRN2	Temperature	Flowering	Kim et al. (2013)
SPL3	Interaction with miR156/157	Light; temperature	Flowering	Gandikota et al. (2007); Kim et al. (2012); Xie et al. (2017)
ZIF2	AS, RNA structure	Zinc	Zinc tolerance	Remy et al. (2014)

This table only contains transcripts for which the functional relevance of UTR-mediated regulation in response to specific environmental signals has been shown.

^a The prefix Os refers to Oryza sativa, the prefix Sa refers to Spartina alterniflora; all other transcripts stem from Arabidopsis thaliana.