sp|Q9LFN7|SHN2_ARATH ----> Ethylene-responsive transcription factor SHINE 2

Intron 1 GTCTTCAACC ... TCTCTGGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	81.82	2	0	9
A2	57.89	8	1	11
A3	50	6	0	6
A4	66.67	3	1	6
A5	-1	0	1	0
A6	33.33	18	1	9
A7	50	34	0	34
A8	50.98	25	2	26
A9	28.57	25	1	10
A10	57.97	29	4	40

>TRINITY_DN44576_c2_g1_i7 from sample A8 / Example spliced isoform

AGTTGTAATAGCCCTGGGGTCGTTCACATGAAGATGATCTCGCCTAAATCTGAAGCAATAAATGCCCAGGCCCATGACAAAGAATAGGATTCGTCGAAGCGCAGCTAGAAAGATGGACTAGTGGCTGCCTCCTCCCCATACACAACCCGGAAAACTATTGCAGTAACTGCAACCCCAGGTTTCACTGTGTCCGATAAAAA
CAACCATGAATTGAATGCTTCTTTCTCCGTCAAAAAGTTGCCTGCTTTTAAATCTCCGGCTACGGATTTTCAACGAAATAATAAGGACCACACTGAATGTCGAACTCCACTTGATGATTTTCAACGAAATAATAAGGACCACACTGAATGTCGAACTCCACTTGATGATTGAAACAACGAAGAGAGGTACTTACACCAAT
TGGGCTTATAAAAGACCTATGAGCCAAACCCTTTGAAAAGAGAGGGCTCTGATTCTCTCCTATCAGAGGGCTTTCTTTCTGCAACACTCACTGCCAAGCTTCGCCAATGCTATTTGGCTTCTCTCAATATTGAAATGCAGCAGGGTCGAATTGCTAACAAGCGTCACCTGCGGTCATCCATTTTTGACACAATCTCTTAC
TTGTCTGAGATTGGACACAGAGAAGTCTGATCTGGGAATCTGGCAGAAGGAAACCGAGGATGTCATTTGGCAGTGGTAGCGATTGGGATCGGCGACCTCCCCTAAAGCAGGAGGAAACCGAGGATACCATTGCCCTGGAGATGATAGAGGAGCTTCTTCATCCTACTTCAGTTGAATTTTCTTCTCAAATAGACCCTTCA
CATATGTGAAATGGAAAAAATGTTAAGAGAGCAGAATTTCCTACAGAACCATAAAAATGTTTATATTAGGGTAGCCAGTTACTCTTTCATGTTGATATGGCCCGGGGAGGTAGGCTTCTTTGGGGTTACCATTATTGTATCGGACAGTATGAGCATGTATTTTATTTCTAATATTGTGTAAGTGATCCATAATTTACATG
GTTTTTAGTTAACTGTTTGTTTGCCCGAGCTATGGGATTAGCTACAGTACTGAGAAAAAGATGCTTTGTTTAAAATTTGTCTGTGTGGGGGCATTTGATGAATCTTGAGAATGTTTTCATACTTAGCATCAATTCGGTTTCTGCGAAGTTTTTTCAATCTCGTGGTAAACTTTTTCTCTGGTAGGTCTTGGGGATTTGGA
CTGGATGAAATTTCTATTATATCTCATATTATCATAAATCGATACATCTATTTTATCATTATATAACAATGGATCTTCTTAAAATAAAATATATAGAAAGAATCGAAGAGACCACG

>TRINITY_DN44576_c2_g1_i1 from sample A8 / Example unspliced isoform:

AGTTGTAATAGCCCTGGGGTCGTTCACATGAAGATGATCTCGCCTAAATCTGAAGCAATAAATGCCCAGGCCCATGACAAgtcttcaaccaacttagacaaatacatgtgtggtggctcttataccctggaggaaattgcgccatcattaatttgttcatgataaattcccttacatagcccggaacagcgtgcacatcc
ttgttgagagaacaaattctgcctgtattttcagtcagttgcagcagaaacactcatcatcatagcatactgctggtaattgtatcaatatctgggatgatcatagctcatatgaagacagaccctgtaatctactgccactttcatttatcgtatgttgcctgccatgcctctcattttgcaattccttgtgaagaaac
tctatggatacccctgccaaaatgaggggtaacacgccctatatctaaggtcaattattttatagcccctttagaatagagagggagaggcggcaagagaagataaagtcacctctccggaatgaaaaatcaagcaaaaataattgaaactcttatactatatatgcgtgctctccttaaaaaaaagggggggggaatac
ctgcttaataaatccatttactggtttcttgcttgttcgacagacagtcctgagcatttaaacacagtaaatctggcaaggtggtctgtcaattttaaaagggctaccaatccttctcaaaagaatgttccacttgatcaacttaagatatagatctgacttgcaatgaaggagtgagaaaatgtaaggcttgtgtatga
tactcccccaattaccaatgctacagccctgatagaagttggatcgctaacacactgtttctctggcagAGAATAGGATTCGTCGAAGCGCAGCTAGAAAGATGGACTAGTGGCTGCCTCCTCCCCATACACAACCCGGAAAACTATTGCAGTAACTGCAACCCCAGGTTTCACTGTGTCCGATAAAAACAACCATGAAT
TGAATGCTTCTTTCTCCGTCAAAAAGTTGCCTGCTTTTAAATCTCCGGCTACGGATTTTCAACGAAATAATAAGGACCACACTGAATGTCGAACTCCACTTGATGATTTTCAACGAAATAATAAGGACCACACTGAATGTCGAACTCCACTTGATGATTGAAACAACGAAGAGAGGTACTTACACCAATTGGGCTTATAA
AAGACCTATGAGCCAAACCCTTTGAAAAGAGAGGGCTCTGATTCTCTCCTATCAGAGGGCTTTCTTTCTGCAACACTCACTGCCAAGCTTCGCCAATGCTATTTGGCTTCTCTCAATATTGAAATGCAGCAGGGTCGAATTGCTAACAAGCGTCACCTGCGGTCATCCATTTTTGACACAATCTCTTACTTGTCTGAGAT
TGGACACAGAGAAGTCTGATCTGGGAATCTGGCAGAAGGAAACCGAGGATGTCATTTGGCAGTGGTAGCGATTGGGATCGGCGACCTCCCCTAAAGCAGGAGGAAACCGAGGATACCATTGCCCTGGAGATGATAGAGGAGCTTCTTCATCCTACTTCAGTTGAATTTTCTTCTCAAATAGACCCTTCACATATGTGAAA
TGGAAAAAATGTTAAGAGAGCAGAATTTCCTACAGAACCATAAAAATGTTTATATTAGGGTAGCCAGTTACTCTTTCATGTTGATATGGCCCGGGGAGGTAGGCTTCTTTGGGGTTACCATTATTGTATCGGACAGTATGAGCATGTATTTTATTTCTAATATTGTGTAAGTGATCCATAATTTACATGGTTTTTAGTTA
ACTGTTTGTTTGCCCGAGCTATGGGATTAGCTACAGTACTGAGAAAAAGATGCTTTGTTTAAAATTTGTCTGTGTGGGGGCATTTGATGAATCTTGAGAATGTTTTCATACTTAGCATCAATTCGGTTTCTGCGAAGTTTTTTCAATCTCGTGGTAAACTTTTTCTCTGGTAGGTCTTGGGGATTTGGACTGGATGAAAT
TTCTATTATATCTCATATTATCATAAATCGATACATCTATTTTATCATTATATAACAATGGATCTTCTTAAAATAAAATATATAGAAAGAATCGAAGAGACCACG

Intron 2 GTAATTTGCA ... TCGTGTTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	43.4	43.4	20.4	46.2
A2	36.74	47	20.6	34
A3	34.69	63.8	17.6	50.2
A4	50.09	25	14.4	35.8
A5	52.82	11.4	8.4	17
A6	34.91	200.6	61.6	153.6
A7	49.19	236.6	156.6	301.6
A8	40.96	199	72.8	203.4
A9	35.67	291.4	137.6	185.6
A10	37.63	334.6	143.4	260.4

>TRINITY_DN109316_c1_g1_i3 from sample A3 / Example spliced isoform

CTTTCTGGAAGCCGATCAAGCTTGATGTTATTTATTCGTCAGCTTTCTGGAAGCCGATCAAGCTTGATGTTATTTATTCGTCAGCTTTCTGGAAGCCGATCAAGCTTTTTTGGGAAGATTGATTTTATTTATTCGTTAGCTTTTTTGGAAGCTGGTCATGCTTTTTCGGATCTGCTCCTCCAACGGTCGAGGAGGGATGG
AATTTATATATGTGTCCAAATTTTCATTGCAAATATTGGTTGATCAAGAAGAATTGGATAAAGATGCCATGGAATGTGATTAACAGATCAGCCTCTGGAGAACAGTTGTAATAGCCCTGGGGTCGTTCACATGAAGATGATCTCGCCTAAATCTGAAGCAATAAATGCCCAGGCCCATGACAAAGAATAGGATTCGTCGA
AGCGCAGCTAGAAAGATGGACTAGTGGCTGCCTCCTCCCCATACACAACCCGGAAAACTATTGCAGTAACTGCAACCCCAGGTTTCACTGTGTCCGATAAAAACAACCATGAATTGAATGCTTCTTTCTCCGTCAAAAAGTTGTCTGCTTTTAAATCTCCGGCTACGGATTTTCAACGAAATAATAAGGACCACACTGAA
TGTCGAACTCCACTTGATGATTGAAACAACGAAGAGAGGTACTTACACCAATTGGGCTTATAAAAGACCTATGAGCCAAACCCTTTGAAAAGAGAGGGCTCTGATTCTCTCCTATCAGAGGGCTTTCTTTCTGCAACACTCACTGCCAAGCTTCGCCAATGCTATTTGGCTTCTCTCAATATTGAAATGCAGCAGGGTCG
AATTGCTAACAAGCGTCACCTGCGGTCATCCATTTTTGACACAATCTCTTACTTGTCTGAGATTGGACACAGAGAAGTCTGATCTGGGAATCTGGCAGAAGGAAACCGAGGATGTCATTTGGCAGTGGTAGCGATTGGGATCGGCGACCTCCCCTAAAGCAGGAGGAAACCGAGGATACCATTGCCCTGGAGATGATAGA
GGAGCTTCTTCATCCTACTTCAGTTGAATTTTCTTCTCAAACAGACCCTTCACATATGTGAAATGGAAAAAATGTTAAGAGAGCAGAATTTCCTACAGAAC

>TRINITY_DN109316_c1_g1_i4 from sample A3 / Example unspliced isoform:

CTTTCTGGAAGCCGATCAAGCTTGATGTTATTTATTCGTCAGCTTTCTGGAAGCCGATCAAGCTTGATGTTATTTATTCGTCAGCTTTCTGGAAGCCGATCAAGCTTTTTTGGGAAGATTGATTTTATTTATTCGTTAGCTTTTTTGGAAGCTGGTCATGCTTTTTCGGATCTGCTCCTCCAACGGTCGAGGAGGGATGG
AATTTATATATGTGTCCAAATTTTCATTGCAAATgtaatttgcagaatgtttctgtgaattgtgttttgttttggaagtgatccttatgtgcttatctctgtgtaattgtgtatcactgtgtctgttttggaagcgcttcctatgtgtctgtgttttgtcatgtatttgtgtgtttttaatctatatttgtgtcaatctc
tgtggttgtgtatttctgtgtttctgtggctgtgtattcctttttaatggatggttttctcataattatttattagaatcatgtcaatcctgtttaggtagattgataatgaagaattggttgattctgatatcgtgttcagATTGGTTGATCAAGAAGAATTGGATAAAGATGCCATGGAATGTGATTAACAGATCAGC
CTCTGGAGAACAGTTGTAATAGCCCTGGGGTCGTTCACATGAAGATGATCTCGCCTAAATCTGAAGCAATAAATGCCCAGGCCCATGACAAATATTGAGGAGGAAGTGACAGAGGACCGCAAGGCTCCAATCGCCGCTCTGCAAATCGCTGAAACCATAAATCGATGATATCAATCAGACCAAGAAGATCAAACGGATAA
TATAGGTAGAGAGACACAGCACTTTCATTTTGCAGTGTTGCGTCACATCAACATTGCTGGATTCCATTCTCATCGGCACGGCACTTTTACTTTGCGGTGTTGAGTCACATTAACATTGCTGGATCCCACTATGCCACTGACAGATTCTAGATGTTCCTTCAAACTGTTGAATTCAAGGCATTGGACAGTGCCATTACATT
GCTGGATCCCACTCCCATTTATTAAACTCGTTGTGTGCGCGCCAATAGTAGACAGGATGTTACATAATATAGCTGTATGCCCCTAAGAGATTCCTTTGTCAAAATGAAAGTGAAAGTGCTGTATGCTGCCAATTGATTTCCTGTCAAAGTGATACTACAGTGAAAGTGCCGTTGAAAATCTGGCCTGTCAGATTGATAAT
AAAAAAAAACTGAACATTCTATGATTTGCAAATATTTTTGGTTTTTTTTACAATCAAAATGGTGTTGAAATTGTTGGAATTGCATTTTTAAGTGGC