sp|Q9LS46|ALMT9_ARATH ----> Aluminum-activated malate transporter 9

Intron 1 GTGCTTTATC ... TTTACAATAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	100	0	1	1
A2	45.45	6	3	7
A3	50	5	6	4
A4	38.46	4	3	2
A5	100	0	4	2
A6	57.89	4	5	6
A7	61.29	6	9	10
A8	53.85	3	3	4
A9	58.62	6	9	8
A10	63.64	6	8	13

>TRINITY_DN120377_c2_g1_i4 from sample A2 / Example spliced isoform

CCAGACTGAAACTATTTTGTGAACTATTTTGCAAGTACTGAATAGTAGTAGTATAGGTTTGTCTGGGATAGTAGTATTCACTTCTTCTGCAACTTTGAAGAACCCGATTAGTAAAGTAATATTTATGGCTCTATACAGAGATTCCGTGTCCTCGGGCAGTAGTAGGGCAAGCCTTTTACCTACAATTCCAGACGAAAATG
AAACAACGGGAATTGGTGGTTGGATCGACCGGCTGAAGAAGGGATTAAGAGATTGGGGTTTCGCTGCCTGTGAGTTAGCCAAGCGCAATGCTCGCAACGGTATATTCTCAGTGAAATTGGGGATGGCTCTCATAATCGTCTCCTTGCTTATGTTCATGGATGACTATGTTTACGAGGATCTCAGCACCCACTGTGTTTGG
GCGATTTTGACAGTGGTGGTTGTCTTTGAATTCACCGTCGGTGCAACGCTGAAAAAGGGTTTCAATCGAGGTTTAGGAACACTTTCTGCAGGTTCACTGGCCACTTTAGCGAAGCTCCATCCAAAGCTGAAATCTTATGAATATTGTTTCAGGGTATTCATTTTGACGTTTTGTTATATCCTGGACTCTGGCTCTAGAAC
CAGAGATACCCGGTTTGTCCTCATTGCTATGGGCGTGACTA

>TRINITY_DN120377_c2_g1_i21 from sample A2 / Example unspliced isoform:

CCAGACTGAAACTATTTTGTGAACTATTTTGCAAGTACTGAATAGTAGTAGTATAGGTTTGTCTGGGATAGTAGTATTCACTTCTTCTGCAACTTTGAAGAACCCGATTAGTAAAGTAATATTTATGGCTCTATACAGAGATTCCGTGTCCTCGGGCAGTAGTAGGGCAAGCCTTTTACCTACAATTCCAGACGAAAATG
AAACAACGGGAATTGGTGGTTGGATCGACCGGCTGAAGAAGGGATTAAGAGATTGGGGTTTCGCTGCCTGTGAGTTAGCCAAGCGCAATGCTCGCAACGGTATATTCTCAGTGAAATTGGGGATGGCTCTCATAATCGTCTCCTTGCTTATGTTCATGGATGACTATGTTTACGAGGATCTCAGCACCCACTGTGTTTGG
GCGATTTTGACAGTGGTGGTTGTCTTTGAATTCACCGTCGGTGCAACGCTGAAAAAGGGTTTCAATCGAGGTTTAGGAACACTTTCTGCAGgtgctttatcccttgctgtcgcagccttggcttctgatactcgctggagattagagcctgtaatcatcataattagcacatttacaatagGTTCACTGGCCACTTTAGC
GAAGCTCCATCCAAAGCTGAAATCTTATGAATATTGTTTCAGGGTATTCATTTTGACGTTTTGTTATATCCTGGACTCTGGCTCTAGAACCAGAGATACCCGGTTTGTCCTCATTGCTATGGGCGTGACTAAATTTGACTGTAAACGCATGCGTATACCCCATCTGAGCAGGAGAGGACCTTTAGGGCAATCTTACAACT
CCATCGAATGTGGCTGATTCCATCGATGATCCTTTAGGGCAATCTTGCAGATATACCCCATCTGGACAGGTATACCCCTTTATAAATTGATCATAGAAAATTTCAAGAATGTGGCGGACGCCATCGAAGGTATACACTATAATATGCATTTAGGGCAATCTTGCAACTGATGACCCCCTTGCATACCTGTATAATAATAG
CGTTGTTGCTGCAGCATAGGGTGTGTGAACGAGTATCTGTCTCGACAAGAATTCAAACGCATTTCTTCAGAAATCTTGACGTGGCATCCTAATGAAGATCCCATCTACAATGGCTATAGGTCGGTACTTGTTTCAGCAACAACAGAGGAAACATTGGAAGGATTGGCAAGGTGGGAACCTCCTCACGGGCATTATAGAAT
GATGAGTATCTTTGGGAGGAATTCGTCACAGTTGGTGATGCCTCAAGGCACTGCGCCTCCAGGTATGTTATTCTTTGATATCTAAGATTTGACAAATTCTGCTTATTATGGTTATTTAGTGTGGTTGTTCAATAGGTATTTCATTATAGCTCGGGAGACGTCACTATTTTCGCCGTTGTATTGGAGGTTTGCAATAATTT
TCTTGGAGTACTCTGTCCCAAATAATAAATTCATTTAGGGTGTACTAACAGGGTATTTAGGGTGTAGTAAACATTCTCTGTTTTAGGTTTTGGCAATTTTTTTGGTTCATATCTGAAATTTGAAATCAGACTATTTGGGATTTGTTTTCGAGCACACTAAATTAATTTTTCAAACGAAAATCCAGTTTCAAACGAACCTA

Intron 2 GTAGGCTTCT ... ACTGTAACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	34.94	27	6	23
A2	43.48	13	6	14
A3	44	21	14	19
A4	67.44	7	10	19
A5	33.33	6	0	6
A6	20	2	0	1
A7	21.43	11	2	4
A8	25.71	13	0	9
A9	27.27	12	1	8
A10	29.41	12	0	10

>TRINITY_DN120454_c2_g1_i3 from sample A3 / Example spliced isoform

GCATTTAGGGCAATCTTGCAACTGATGACCCCCTTGCATACCTGTATAATAATAGCTTTGATGGTGCAGCATAGAGTGTGTGAACGAGTATCTGTCTCGACAAGAATTCAAACGCATTTCTTCAGAAGTCTTGACGTGGCAAGCTGCTGAAGATCCCATCTACCATGGCTATAGATCGGTACTTGTCTCAGCGACAAGGA
AGGAAACATTGGCACAACGGAGGAAACATTGGAAGGATTTGCAAGGTGGGAACCTCCTCACAGGCGTTATCGAATGATGGGTATCTTTGGGAGGAATTCGTCAGAGTTGGTGGTGCCTCAAGCACTACACCTCCGTGACCTTGGCATTGCATGGATGCACACAATCGGAGATCCAGGTATGTTATTCTTTGATATTTAAG
ATTTGACAAATTCTGCTTATAATGAAATTTTGGTGTGGTTGTTCAATAGGTTTTTCATTATAGCCCACTGCCACTATTTTAGCCGTTGT

>TRINITY_DN120454_c2_g1_i2 from sample A3 / Example unspliced isoform:

GCTAATGTTTCCTTCCTTGTCTCAGCGACAAGGAAGGAAACATTGGCACAACGGAGGAAACATTGgtaggcttctttaatttggccagacaatacactttgttagtattatgtgtagattggatcatctggtctaaactgagtttatatgactgtaacagGAAGGATTTGCAAGGTGGGAACCTCCTCACAGGCGTTATC
GAATGATGGGTATCTTTGGGAGGAATTCGTCAGAGTTGGTGGTGCCTCAAGCACTACACCTCCGTGACCTTGGCATTGCATGGATGCACACAATCGGAGATCCAGGTATGTTATTCTTTGATATTTAAGATTTGACAAATTCTGCTTATAATGAAATTTTGGTGTGGTTGTTCAATAGGTTTTTCATTATAGCCCACTGC
CACTATTTTAGCCGTTGT

Intron 3 GTATACACTA ... TGCAGCATAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	53.66	19	19	25
A2	68.42	6	12	14
A3	40.28	10	4.5	9
A4	55.55	9	8.5	14
A5	66.67	2	2	6
A6	40	3	1	3
A7	41.18	10	4	10
A8	53.81	9	3	18
A9	76.47	2	3	10
A10	42.86	8	4	8

>TRINITY_DN120377_c2_g1_i1 from sample A2 / Example spliced isoform

ATGCAGGAATACAACTCACAGATCGGCGATTGTTTACAGGTGAATCAGCTTTCCGCCACTTTTTCCTTAATTGCAATTCTCTTGTAACTAAAATAAGTGATGGCAATGGTTGGCAGATGTGGAGTAATAGCAGATATCGCAGCTCGGAAAGGCTGTCCATGGCGTTTTTTCTGGATTTTAAAGACAAAGCCGAGATTCGT
GCTCCCGAAGAGCTGATTGATGAGAAGCATCCCCAAAATACAAAGCAGTTAAGTTTGAAGATCTGAGAATATACTCAGTTTACGACGATGTCAGCACCCATTGCGTTTGGGCGATTTTGACAGTGGTGGTTGTTTTTGAATTCACTATCGGTATGATCTCATTTGTTTATTAAATTGTTGTTCACAATAGTGTACACAAT
CATAATGGTAACTGTAATTTAGTTTCTACACATGAAAACCTACAATTCTATATCTACAGGTGCAACACTGAGAAAGGGTTTCAATAGACGTTTAGGAACACTTTCTGCAGACCTGCTTTAGCTCTTGTTGTCGCAGCCGGTAGCCATCATAATCAGCACATTTACTTATCTTCATTGCCTAATTATGTGTCACAGGATTA
GTGGGTTATCTTCATTGCCTTAATTCTCATCCTCAAATTGCTTTTCTTTTCGTTGATTTCAGGTTCACTTGCCAGTCCTTTAGCGAAGCTCCATTCATTTTCAATTTATGAGTATTGTTTCAGGGTTTTCATTTTGAGTATGGTTTCAGGGTATTCACTTCGACATTTTGTTATATTCTGGACTCTGGCTCTATAACCAG
AGATACCCGGTTTGTCCACATTGCTATGGGCGCGACCATAAATTTGGCTGTAAACGCATCTGAGCAGGAGAGGACCTTTAGGGCAATCTTACAACTCCATTGTAGCGGACTCCATCCAAGAGTGTGTGAACGAGTATCTGTCTCGACAAGAATTCAAACGCATTTCTTCAGAAGTCTTGACGTGGCAAGCTGCTGAAGAT
CCCATCTACCATGGCTATAGATCGGTACTTGTCTCAGCGACAAGGAAGGAAACATTGGTACAACGGAGGAAACATTGGAAGGATTTGCAAGGTGGGAACCTCCTCACAGGCGTTATCGAATGATGGGTATCTTTGGGAGGAATTCGTCAGAGTTGGTGGTGCCTCAAGCACTACACCTCCGTGACCTTGGCATTGCATGG
ATGCACACAATTGGAGATCCAGGTATGTTATTCTTTGATATCTAAGATTTGACAAATTCTGCTTATAATGAAATTTTGGTGTGGTTGTTCAATAGGTTTTTCATTATAGCCCACTGTCACTATTTTAGCCGTTGTATTGGAGGTTTGCTATAAATTTTCTTGGAGTACTTTGTATCAATTAATAAATTCATTTAGGGTGC
ACTAATAGTGTATGTAGGGTGTAGTAAACATTCTCTGTTTTAGGTTTTGGCGATTTTTTGGGTTCATATCTATTAAAATTTAAAATATATATATATATATATATAGAATTGCAAAATCAAAATATTTAGGATTTATTTTCCAGCACACTAAATTTATTTTTCAATCAAAAATCAA

>TRINITY_DN120377_c2_g1_i8 from sample A2 / Example unspliced isoform:

CCTAATTATGTGTCACAGGATTAATTGGTTATCTTCATTTCCTTAATTCTCATCCTCAAATTGCTTTTCCTTTTATTGATTTCAGGTTCACTTGCCAGTCCTTTAGCGAAGCTCCATTCATTTTCAATTTATGAGTATTGTTTCAGGGTATTCATTTTGAGTATGGTTTCAGGGTATTCACTTCGACATTTTGTTATATT
CTGGACTCTGGCTCTATAACCAGAGATACCCGGTTTGTCCACATTGCTATGGGCGCGACCATAAATTTGGCTGTAAACGCATGCATATAGCCCATCTTAGTAGGAAAGGACCTTTAGGGCAATCTTACAACTCCATTGTAGCGGACTCCATCCAAGgtatacactataatatgcatttagggcaatcttgcaactgatga
cccccttgcatacctgtataataatagcgttgatggtgcagcatagAGTGTGTGAACGAGTATCTGTCTCGACAAGAATTCAAACGCATTTCTTCAGAAGTCTTGACGTGGCAAGCTGCTGAAGATCCCATCTACCATGGCTATAGATCGGTACTTGTCTCAGCGACAAGGAAGGAAACATTGGTACAACGGAGGAAACA
TTGGAAGGATTTGCAAGGTGGGAACCTCCTCACAGGCGTTATCGAATGATGGGTATCTTTGGGAGGAATTCGTCAGAGTTGGTGGTGCCTCAAGCACTACACCTCCGTGACCTTGGCATTGCATGGATGCACACAATTGGAGATCCAGGTATGTTATTCTTTGATATCTAAGATTTGACAAATTCTGCTTATAATGAAAT
TTTGGTGTGGTTGTTCAATAGGTTTTTCATTATAGCCCACTGTCACTATTTTAGCCGTTGTATTGGAGGTTTGCTATAAATTTTCTTGGAGTACTTTGTATCAATTAATAAATTCATTTAGGGTGCACTAATAGTGTATGTAGGGTGTAGTAAACATTCTCTGTTTTAGGTTTTGGCGATTTTTTGGGTTCATATCTATT
AAAATTTAAAATATATATATATATATATATAGAATTGCAAAATCAAAATATTTAGGATTTATTTTCCAGCACACTAAATTTATTTTTCAATCAAAAATCAA