Computational identification and analysis of novel sugarcane microRNAs

Thiebaut, Flávia; Grativol, Clícia; Carnavale-Bottino, Mariana; Rojas, Cristian Antonio; Tanurdzic, Milos; Farinelli, Laurent; Martienssen, Robert A; Hemerly, Adriana Silva; Ferreira, Paulo Cavalcanti Gomes

doi:10.1186/1471-2164-13-290

BMC Genomics

Table 4 Predicted sugarcane and sorghum mRNA targets for the high confidence novel miRNAs

From: Computational identification and analysis of novel sugarcane microRNAs

miRNA ID	Sugarcane targets^a	Sorghum targets^b
sof-miR-Seq7	TC130098,TC151912,TC148492,TC113248,TC152641,TC150124,TC132416,TC114872,TC140938,TC115982,TC120001	+
sof-miR-Seq15	No TC found	+
sof-miR-Seq42	TC153375,TC149921,TC131074,TC139079	+
sof-miR-Seq143	No TC found	+
sof-miR-Seq151	TC153350,TC116972,TC137677	+
sof-miR-Seq155	TC152159,TC125281,TC149817,TC136354	+
sof-miR-Seq171	TC149921,TC132416,TC152095,TC148248	+
sof-miR-Seq183	TC149944,TC132416	+
sof-miR-Seq253	No target found	+
sof-miR-Seq313	TC154059,TC139862,TC140501	+
sof-miR-Seq345	No TC found	-
sof-miR-Seq375	TC136870,TC153496,TC134975	+
sof-miR-Seq376	No TC found	-
sof-miR-Seq393	TC152280,TC116268	+
sof-miR-Seq394	No TC found	-
sof-miR-Seq409	TC129500,TC154465,TC152078,TC154496,TC150491,TC154742,TC131475,TC116420,TC142998,TC146859,TC134345,TC133965,TC153566,TC149558,TC149819,TC154535,TC150277	+
	TC129500,TC154465,TC152078,TC154496,TC150491,TC154742,TC131475,TC116420,TC142998,TC146859,TC134345,TC133965,TC153566,TC149558,TC149819,TC154535,TC150277
sof-miR-Seq468	TC153570,TC141767	+
sof-miR-Seq488	TC152925	-
sof-miR-Seq501	TC151370	-
sof-miR-Seq504	TC126404	+
sof-miR-Seq509	No target found	+
sof-miR-Seq511	TC124067,TC118309	+
sof-miR-Seq513	TC141387	-
sof-miR-Seq536	TC139920,TC130151,TC120175	+
sof-miR-Seq538	No TC found	-
sof-miR-Seq565	No TC found	-
sof-miR-Seq568	No target found	+
sof-miR-Seq587	TC139519,TC152280	+
sof-miR-Seq594	TC115982,TC149921,TC113248,TC140938,TC132416,TC148248,TC140476	+
sof-miR-Seq598	TC124210	+
sof-miR-Seq610	TC122224,TC140470,TC145127,TC142562,TC120001,TC150124	+
sof-miR-Seq648	TC137080,TC134144,TC117196	+
sof-miR-Seq656	No TC found	+
sof-miR-Seq670	TC138461,TC153815,TC149322,TC146441,TC153901,TC142328,TC154437,TC154455,TC125410	+
sof-miR-Seq678	TC133894,TC129132	+
sof-miR-Seq700	TC152242,TC146024,TC117281,TC152372,TC146587,TC153355,TC154348,TC148421,TC128182,TC148979,TC120001,TC117481,TC134335,TC113000,TC138157,TC130788,TC129900	+
sof-miR-Seq720	TC125467,TC129883,TC145851,TC144060	+

^a Identification of sugarcane targets. miRNAs that only have singletons as targets were identified by No TC found. MiRNAs that did not have predicted targets were identified by No target found.
^b Plus and minus signals indicate presence or absence (respectively) of sorghum genes containing conserved miRNA recognition sites.

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ISSN: 1471-2164

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