Conserved upstream open reading frames in higher plants

BMC Genomics

Table 3 Rice uORFs predicted by uORFSCAN that are conserved in Arabidopsis

Rice		Arabidopsis		Avg. A.A. similarity (%)	Putative function^b
Identifier	5'-UTR^a	Identifier	5'-UTR^a
AK101100	142_12_21^c,d	AT1G51690.1	555_12_1160	33	Protein phosphatase 2a
AK066952	365_66_182	AT3G13225.1	364_63_431	27	WW domain containing protein
	368_63_182^e		364_63_431	29
	503_51_59		553_51_254	1
AK119592	304_90_148^c,d	AT3G01470.1	162_87_120	36	Homeodomain leucine zipper protein
AK100589	248_156_179^c,d	AT3G02470.3	222_156_154	82	S-Adenosylmethionine decarboxylase
AK103391	176_30_148^c,d,f	AT4G22590.1	254_30_137	44	Trehalose-6-phosphate phosphatase
	205_75_74^g		283_75_63^g	71
AK069534	813_9_432	AT4G12770.1	41_9_108	50	Auxilin-like protein
AK069526	214_126_544^c	AT4G19110.2	255_126_527	44	GAMYB-binding protein
	690_9_185^c		603_9_296	50
	820_36_28		398_36_474	17
AK072868	338_90_96^c,d	AT5G58380.1	11_87_295	17	CBL-interacting protein kinase
AK060523	173_123_185^c	AT5G07840.1	289_117_250	36	Ankyrin-3
			313_93_250^e	44
	206_90_185^e		313_93_250^e	33
AK067412	222_84_49^c,h	AT5G50180.1	357_84_79	4	Protein kinase ATN1
AK102277	228_117_150^c	AT1G68550.1	309_96_95	21	Hypothetical protein
AK100332	1174_21_883	AT5G44800.1	359_21_3	14	Helicase
	1618_21_439		359_21_3	17
	1810_21_247		359_21_3	17
AK059639	1_45_784 ^c	ATCG00920.1	55_45_844	86	40S ribosomal protein S15

^a Pre-uORF distance_uORF length_intercistronic distance.
^b Functional annotation based on "the UniProt Knowledgebase (uniProt)" database.
^c Rice uORF is conserved in at least two orthologous cereal and Arabidopsis genes.
^d Rich in serine (at least 20%).
^e Nested uORF.
^f One of several genes (identifiers) that are in multiple tables because different conserved uORFs were identified in the different datasets.
^g Overlapping uORF.
^h Rice in arginine (at least 20%).
Ribosomal rRNA genes have been removed.
Rows in italics are false positive predictions (see Table 4. Criteria for verifying rice uORFs that are conserved in Arabidopsis)

ISSN: 1471-2164