Conserved upstream open reading frames in higher plants

Tran, Michael K; Schultz, Carolyn J; Baumann, Ute

doi:10.1186/1471-2164-9-361

BMC Genomics

Table 1 The uORFs predicted by uORFSCAN in 5 out of 5

From: Conserved upstream open reading frames in higher plants

Rice		Wheat		Barley		Maize		Sorghum		Avg. A.A. similarity (%)	Putative function^b
Identifier	5'-UTR	Identifier	5'-UTR^a	Identifier	5'-UTR^a	Identifier	5'-UTR^a	Identifier	5'-UTR^a
AK106095	131_9_17	TC265929	113_9_16	TC148181	67_9_16	TC288369	131_9_17	TC102998	149_9_17	100	Oxidoreductase
AK103391^c	205_75_74	TC269775	251_75_62	TC134190	204_75_62	TC294011	215_75_75	TC103599	106_75_378	88	Trehalose-6-phosphate phosphatase
AK100589 ^d,e	240_9_334	TC264559	201_9_317	TC130707	228_9_318	TC292591	286_9_320	TC91317	260_9_329	50	S-adenosylmethionine decarboxylase (AdoMetDC)
	248_156_179		209_150_168		236_150_169		294_153_168		268_153_177	90
	296_108_179		254_105_168		281_105_169		336_111_168		310_111_177	92
AK073303	67_9_142	TC237149	75_9_113	TC132556	81_9_139	TC305609	127_9_69	TC102988	222_9_69	50	Alkaline phytoceramidase
	135_9_74		75_9_113		81_9_139		127_9_69		222_9_69	50
AK072868 ^e	249_27_248	TC247418	258_27_266	TC139536	298_27_272	TC306591	444_27_564	TC102544	331_27_265	11	CBL-interacting protein kinase
	259_195_70		268_198_85		308_198_91		260_192_583		341_195_87	29
	269_39_216		278_39_234		318_39_240		768_39_228		351_39_233	8
	338_90_96		347_93_111		387_93_117		576_93_366		420_90_113	10
	392_36_96		404_36_111		444_36_117		633_36_366		474_36_113	8
AK072649	100_192_117	TC236348	79_192_117	TC133316	76_192_93	TC305793	180_192_116	TC93140	168_192_116	78	Ribosomal protein S6 kinase
AK066145	178_12_58	TC266262	149_12_73	TC134484	154_12_231	TC286452	224_12_70	TC94546	187_12_69	33	Ubiquitin-fold protein
AK064792	276_15_187	TC267323	254_15_188	TC132983	253_15_-9	TC306152	263_15_170	TC107743	230_15_150	87	F9L1.29 protein
AK060523	173_123_185	TC235416	201_126_157	TC148319	211_120_163	TC305149	255_129_195	TC103609	240_129_212	58	Ankyrin-3

^a Pre-orf distance_uORF length_intercistronic distance.
^b Functional annotation based on "The UniProt Knowledgebase (UniProt)" database.
^c One of several genes (identifiers) that are in multiple tables because different conserved uORFs were identified in the different datasets.
^d Previously reported upstream open reading frames (see 'Introduction' section on AdoMetDC).
^e Contain one or more nested uORFs.
Ribosomal rRNA genes have been removed.
See Table 2 for criteria for verifying rice uORFs in 5 out of 5.

Back to article page

ISSN: 1471-2164

Contact us

Submission enquiries: bmcgenomics@biomedcentral.com
General enquiries: ORSupport@springernature.com