Table 3.

Comparison of expression patterns of 36 drought-responsive genes.

TIGR Locus	Annotation (TIGR version 6.1)	Normal a				Drought b
		ZS97	IRAT109	NIL-ZS	NIL-IR	ZS97	IRAT109	NIL-ZS	NIL-IR	C1 c	C2 d
LOC_Os02g32250	retrotransposon protein	−	+	−	+	↑	↑	↑	↑	4	a
LOC_Os02g40240	receptor kinase	+	−			↓	↓		↑	1	d
LOC_Os02g41710	cyclic nucleotide-gated ion channel	+	−	+	−	↑	↑	↓	↑	2	d
LOC_Os02g44780	polyprenyl synthetase					↑	↑	↑	↑	4	a
LOC_Os02g48360	pyrophosphate-fructose 6-phosphate 1-phosphotransferase subunit alpha	−	+	−	+	↑	↑	↑	↑	4	a
LOC_Os02g48710	expressed protein			+	−	↑		↑	↑	3	b
LOC_Os02g51840	expressed protein			+	−				↑	3	d
LOC_Os02g53200	glucan endo-1,3-beta-glucosidase precursor	+	−	+	−	↓	↑	↓	↑	4	c
LOC_Os02g54254	saccharopine dehydrogenase	+	−			↑	↑	↑	↑	4	a
LOC_Os03g03034	flavonol synthase/flavanone 3-hydroxylase			−	+	↑	↑		↓	1	d
LOC_Os03g03050	expressed protein	+	−			↑	↑	↑	↑	4	a
LOC_Os03g03790	AMP-binding domain containing protein			−	+	↓	↓	↓	↓	4	a
LOC_Os03g36550	transposon protein	+	−			↑	↑		↑	2	d
LOC_Os03g37960	acyl CoA binding protein					↑			↑	1	c
LOC_Os03g38800	AAA family ATPase	−	+				↓	↓	↓	2	b
LOC_Os04g07890	AGAP002737-PA	+	−			↑	↑		↑	2	d
LOC_Os04g08280	retrotransposon protein,Ty3-gypsy subclass	+	−	−	+	↑	↑	↑	↓	3	d
LOC_Os04g08800	expressed protein	−	+			↑	↑	↑	↑	4	a
LOC_Os04g52450	aminotransferase	+	−	+	−		↑		↑	4	c
LOC_Os04g52640	SHR5-receptor-like kinase	−	+	−	+	↑	↑		↓	1	d
LOC_Os04g52670	OsSAUR21 - Auxin-responsive SAUR gene family member	+	−	+	−		↑		↑	4	c
LOC_Os05g37450	starch binding domain containing protein	−	+			↑		↑	↑	3	b
LOC_Os05g37830	expressed protein	+	−				↑	↑	↑	2	b
LOC_Os05g38360	DHHC zinc finger domain containing protein	+	−				↑			3	b
LOC_Os07g10970	leucine zipper protein-like	−	+					↓	↑	1	c
LOC_Os07g15770	CCT motif family protein	−	+	−	+	↓	↑	↑		1	c
LOC_Os09g13440	expressed protein	+	−	+	−	↑↓		↓	↑	1	c
LOC_Os09g14450	pollen signaling protein with adenylyl cyclase activity	−	+				↓		↑	3	c
LOC_Os11g29790	receptor kinase	−	+			↑	↓	↓	↓	2	b
LOC_Os11g35274	protein kinase domain containing protein	+	−	+	−		↑	↑	↑	2	b
LOC_Os12g03740	OsFBX438 - F-box domain containing protein					↑	↑	↑	↑	4	a
LOC_Os12g07280	ZOS12-02 - C2H2 zinc finger protein	−	+	−	+	↓		↓↑	↓	1	c
LOC_Os12g08260	dehydrogenase E1 component domain containing protein	+	−			↑	↑	↑	↑	4	a
LOC_Os12g39360	aspartic proteinase nepenthesin precursor	+	−			↓	↓	↓	↓	4	a
LOC_Os12g39520	OsFBDUF66 - F-box and DUF domain containing protein	+	−			↑	↑	↑	↑	4	a
LOC_Os12g44100	peptide transporter PTR2	+	−			↓	↑	↓	↓	3	b

^aComparison of expression patterns under normal condition. − and + indicate significant different expression level between ZS97 and IRAT109 or between NIL-ZS and NIL-IR, −: lower expression level and +: higher expression level.

^bComparison of expression patterns under drought condition. ↑: upregulated by drought stress; ↓: downregulated by drought stress; ↑↓: expression level was first increased and then decreased; ↓↑: expression level was first decreased and then increased.

^cC1: Four groups (1–4) classified based on the difference in responsive trend between the parent line and the corresponding NIL.

^dC2: Four groups (a–d) classified based on the difference in responsive trend to drought between the two parents and/or between the paired NILs.