Table 3.

The co-located DElncRNA–DEmRNA pairs.

DElncRNA				Co-Located DEmRNA
lncRNA ID	lncRNA Exon Position	Up or Down-Regulation (RBSDV/MOCK)	log2Ratio (RBSDV/MOCK)	mRNA_ID	mRNA_Position	Up or Down-Regulation (RBSDV/MOCK)	log2Ratio (RBSDV/MOCK)	Gene Product Name
TCONS_00089479	17556112–17556165, 17558595–17560192	up	3.07	LOC_Os08g28710	17558062–17560192	up	3.06	Receptor protein kinase CRINKLY4 precursor
TCONS_00065705	8902479–8902875, 8949120–8949152	up	2.65	LOC_Os05g15770	8902479–8903793	up	2.31	Glycosyl hydrolase
TCONS_00010868	36308049–36308470, 36310641–36311246	up	2.63	LOC_Os01g62630	36268063–36269737	up	2.97	Aspartic proteinase nepenthesin precursor
TCONS_00056787	6938662–6942391, 6942487–6943054, 6943635–6943932	up	2.48	LOC_Os04g12540	6939046–6942716	up	2.43	Receptor-like protein kinase
TCONS_00059316	27164826–27165925, 27166037–27166095, 27166309–27166512, 27171990–27175910, 27177026–27177468	up	2.28	LOC_Os04g45890	27172115–27173657	up	1.73	Retrotransposon protein
TCONS_00059822	30607493–30609094, 30609233–30610559	up	2.24	LOC_Os04g51660	30608765–30610406	up	1.79	Transferase family protein
TCONS_00059822	30607493–30609094, 30609233–30610559	up	2.24	LOC_Os04g51796	30697527–30701645	up	6.33	DNA repair ATPase-related
TCONS_00009978	30512276–30512751, 30512877–30513308, 30513415–30513683	up	1.89	LOC_Os01g53090	30512276–30521565	up	1.59	Pathogen-related protein
TCONS_00011723	41949333–41951662, 41951830–41951887, 41952060–41952124	up	1.58	LOC_Os01g72270	41900002–41901651	up	3.89	Cytochrome P450-dependent fatty acid hydroxylase
TCONS_00024711	819049–819195, 819546–819756, 820494–824445	down	−1.71	LOC_Os12g02330	746155–747300	up	1.47	LTPL13—Protease inhibitor
TCONS_00030021	19637837–19638788, 19638882–19640733, 19641766–19641987	down	−5.76	LOC_Os12g32610	19675353–19676314	up	2.57	-
TCONS_00049628	22799469–22800028, 22800496–22801659, 22803529–22803721	down	−7.12	LOC_Os03g40930	22744328–22746916	up	1.49	-