Table 2: Transcripts with changes in AS patterns upon moderate temperature shifts.

A. Changes upon transfer of Col plants from 20°C to 16°C.							Total transcript/	Total transcript/	Fold change of
			Product sizes	Small product	Small product	P-value	RPL12C	RPL12C	Total transcript	P-value
Primer pair	AGI	Description	[BP]	[%] at 16 °C	[%] at 20 °C	20-16	Levels 16°C	Levels 20°C	Upon transfer to 16°C
12	At1g72320	APUM23	141 / 150 / 215	26	18	0.00175	0.0445	0.0608	0.73	0.40274
72	At2g04790	unknown protein	167 / 190	85	77	0.03573	0.5868	0.7230	0.81	0.36801
75	At2g36000	mitochondrial transcription termination factor-related	150 / 254	28	33	0.00014	0.1326	0.3745	0.35	0.16424
118	At2g02960	zinc finger (C3HC4-type RING finger) family protein	197 / 203 / 222	58	65	0.00737	0.0351	0.0424	0.83	0.39887
148	At1g76510	ARID/BRIGHT DNA-binding domain-containing protein	189 / 212	44	32	0.01842	0.0754	0.1275	0.59	0.00808
189	At5g43270	SPL2 SQUAMOSA PROMOTER BINDING PROTEIN-LIKE 2	160 / 244	43	64	0.04011	0.0201	0.0271	0.74	0.83124
243	At2g33830	dormancy/auxin associated family protein	140 / 146	8	13	0.00902	1.8394	2.8719	0.64	0.07320
285	At3g19840	pre-mRNA-processing protein 40C	171 / 207	46	64	0.01337	0.0042	0.0070	0.60	0.47984
288	At3g12570	FYD	159 / 188	44	39	0.05332	0.0240	0.0428	0.56	0.02980
314	At2g43410	FPA	409 / 538	20	24	0.00774	0.0580	0.0851	0.68	0.08719
322	At2g33480	ANAC041 Arabidopsis NAC domain containing protein 41	321 / 399	10	15	0.00555	0.0579	0.0733	0.79	0.49148
343	At3g29160	AKIN11 ARABIDOPSIS SNF1 KINASE HOMOLOG 11	159 / 307	45	34	0.00804	0.1125	0.1437	0.78	0.24488

B Changes upon transfer of Col plants from 20°C to 24°C.							Total transcript/	Total transcript/	Fold change of
			product sizes	small product	small product	p-value	RPL12C	RPL12C	Total transcript	P-value
Primer pair	AGI	Description	[BP]	[%] at 20 °C	[%] at 24 °C	20-24	Levels 20°C	Levels 24°C	Upon transfer to 24°C
12	At1g72320	APUM23	141 / 150 / 215	18	14	0.04286	0.0608	0.0406	0.67	0.27551
36	At4g12790	ATP-binding family protein	212 / 338	41	46	0.03911	0.2433	0.2031	0.83	0.18972
59	At5g66010	RNA-binding (RRM/RBD/RNP motifs) family protein	105 /182	30	34	0.05018	0.0649	0.0719	1.11	0.62294
72	At2g04790	unknown protein	167 / 190	77	84	0.03198	0.7230	1.1533	1.60	0.00739
75	At2g36000	mitochondrial transcription termination factor-related	150 / 254	33	45	0.00003	0.3745	0.3893	1.04	0.89047
118	At2g02960	zinc finger (C3HC4-type RING finger) family protein	197 / 203 / 222	65	71	0.04727	0.0424	0.0419	0.99	0.95003

Changes in the ratio of AS isoforms with p <0.05 and changes >4 % are considered significant. In case more than two splice isoforms are generated the ones considered are underlined. The total transcript level of all alternative splice forms is expressed relative to the RPL12c transcript level. The fold-change between the levels observed at the different temperatures and the corresponding p-values are indicated.