sp|O80929|RL361_ARATH ----> Large ribosomal subunit protein eL36z

Intron 1 GTTTGGCTAT ... TTTATTACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	83.33	1	7	3
A2	35.29	11	6	6
A3	23.08	5	2	1
A4	21.74	9	3	2
A5	33.33	2	1	1
A6	27.54	25	12	7
A7	29.41	24	14	6
A8	62.96	5	17	0
A9	30.28	38	15	18
A10	39.39	20	14	12

>TRINITY_DN44295_c1_g2_i10 from sample A7 / Example spliced isoform

CACCAAGCGCGAGCTCGCTCCCCACCCTTCCACTAACTAAGGGGCTTTGCTCCTTACAAGAAGCGGATCACTGAGCTGCTAAAGGTAGGGAAGGATAAGTGTGCTCTAAAAGTGGTGAAAGTGGCGAAGAAGCCGGGAACCCACAAAAGGGCCAAGAAGAAGAGACAGGAGATGTCAAACGTCCTCAGAAAGATGAGATA
TCACTACAGAGATCTCCAATGGGTTCGATAATAAGGAAGAATACCTGCAACCAACACAAAATATGCATTGAAATAGTCCTTAGTTCCATCCGAATGGCATGCACAGAAGGAGACAGAGTGATAATACTAAGTAGATTGGTACAAGAAACAGAGAGTATGGCATCTGCATCATCATATGACATAGATGGAAGTGGAATGGA
ATAGCAGCTTGAGATGTGGCATCCACCAGTTATTAGGGATTGCCAAGATATTCAATGCACAATTAGGTGGCTTTTTTCTTTTGGGTTCTTGTGGTTTTGTCTTCAATGAAGGCTGGTTGGATATGTTCCCTGGGGTCACCAGTTCAAAACTCCTTCTCGGCATCTATCTATCTCTATAGCTTGTCCCGCCGCCCAAGCAC
TCGGCTGCCCTAATTATTACACCATATTAATTTTTCTCTCTTCGATGTTTGTCAGAAGTCAGAAATCTGTAGCAGGCGGCCTAATTGACAGGAAACTCCTGTTGCATGTTTCAAGCTATACAAATGGAAGTGACCATCGCCATTTCTCGCCTGTTCGCCCTTCTCTACGATTGGACCATCTTCCTCAAGTGCACTTCAAA
GCAGTACATCTTTTATCCAAAGGATGTTTTCGTCCCAATTGGGCTCAAGTAGAAAAAAATTCAAATCTTGTGTAGTTTCAGATCGTTTACAGATTTTGTTAACTTCGCGTTCGCTTCAAAGAGCCTCAAAACCTCTAGGGTATGGAGGAAGGATATCCTACACGGAGGTGATTCTGCCAGAGATGGAAAATTGAATTGTT
GGATGTCTGTATGTGTTGGTGTACTTGGGCTGTTGGTGTTTGATATATTGTTCTCAATTAAATTTTCGATGTATTTCCATTAAATTTGATCATCATTTTTTATTCAAATGTACATCATATTTTTTAGTGGTGTTAAAGGTATGAACTTTACACCTGAGATTTATTGAAAGGTCAGGAAAAAACCAAACACCAGCAGAACA
ATTGGACTTGTTTGAATAAACAGAAAAAAAAATGGTGTTTTCAT

>TRINITY_DN44295_c1_g2_i1 from sample A7 / Example unspliced isoform:

CACCAAGCGCGAGCTCGCTCCCCACCCTTCCACTAACTAAGGGGCTTTGCTCCTTACAAGAAGCGGATCACTGAGCTGCTAAAGGTAGGGAAGGATAAGTGTGCTCTAAAAGTGGTGAAAGTGGCGAAGAAGCCGGGAACCCACAAAAGGGCCAAGAAGAAGAGACAGGAGATGTCAAACGTCCTCAGAAAGATGAGgtt
tggctatttgggtttgcattgaacagacagaagttggggcagttttggcagttttttcgaagctggctcttcttagttcaacatttcttctcttttgggtttggcattccattaattgggtggaagacaaagctcaagaagttgaatttcggagcatttgttgatctgggtctctcgagtttaggcctttttaggctacc
ttttgatctagttctccaagtttcacattggtctttgatctgggtgtggcttcttttgaagacttgataagtcatacattgcattaatggatcaagttggtacttggaagcttttggacttgggttttgggaattttgcttgataagatagctttgagagtgtcgggcttctctgaattgagttcaattttcccttagtt
cgccttgaagaaggcaagaaaacatcaaggaccagcgacatggctgcccccaaacctgaggacattactcatccaccaatggaacaactgccaggcctggagtactgcatagattccaatccccttgccgtttattacagATATCACTACAGAGATCTCCAATGGGTTCGATAATAAGGAAGAATACCTGCAACCAACAC
AAAATATGCATTGAAATAGTCCTTAGTTCCATCCGAATGGCATGCACAGAAGGAGACAGAGTGATAATACTAAGTAGATTGGTACAAGAAACAGAGAGTATGGCATCTGCATCATCATATGACATAGATGGAAGTGGAATGGAATAGCAGCTTGAGATGTGGCATCCACCAGTTATTAGGGATTGCCAAGATATTCAATG
CACAATTAGGTGGCTTTTTTTCTTTTGGGTTCTTGTGGTTTTGTCTTCAATGAAGGCTGGTTGGATATGTTCCCTGGGGTCACCAGTTCAAAACTCCTTCTCGGCATCTATCTATCTCTATAGCTTGTCCCGCCGCCCAAGCACTCGGCTGCCCTAATTATTACACCATATTAATTTTTCTCTCTTCGATGTTTGTCAGA
AGTCAGAAATCTGTAGCAGGCGGCCTAATTGACAGGAAACTCCTGTTGCATGTTTCAAGCTATACAAATGGAAGTGACCATCGCCATTTCTCGCCTGTTCGCCCTTCTCTACGATTGGACCATCTTCCTCAAGTGCACTTCAAAGCAGTACATCTTTTATCCAAAGGATGTTTTCGTCCCAATTGGGCTCAAGTAGAAAA
AAATTCAAATCTTGTGTAGTTTCAGATCGTTTACAGATTTTGTTAACTTCGCGTTCGCTTCAAAGAGCCTCAAAACCTCTAGGGTATGGAGGAAGGATATCCTACACGGAGGTGATTCTGCCAGAGATGGAAAATTGAATTGTTGGATGTCTGTATGTGTTGGTGTACTTGGGCTGTTGGTGTTTGATATATTGTTCTCA
ATTAAATTTTCGATGTATTTCCATTAAATTTGATCATCATTTTTTATTCAAATGTACATCATATTTTTTAGTGGTGTTAAAGGTATGAACTTTACACCTGAGATTTATTGAAAGGTCAGGAAAAAACCAAACACCAGCAGAACAATTGGACTTGTTTGAATAAACAGAAAAAAAAATGGTGTTTTCAT

Intron 2 GTTTGGCTAT ... TGTTTGTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	78.95	2	7	8
A2	75	3	6	12
A3	55.56	4	2	8
A4	53.85	3	3	4
A5	100	0	1	0
A6	34.69	32	12	22
A7	40.43	28	14	24
A8	52.5	19	17	25
A9	51.35	18	15	23
A10	54.17	11	14	12

>TRINITY_DN44295_c1_g2_i11 from sample A7 / Example spliced isoform

CACCAAGCGCGAGCTCGCTCCCCACCCTTCCACTAACTAAGGGGCTTTGCTCCTTACAAGAAGCGGATCACTGAGCTGCTAAAGGTAGGGAAGGATAAGTGTGCTCTAAAAGTGGTGAAAGTGGCGAAGAAGCCGGGAACCCACAAAAGGGCCAAGAAGAAGAGACAGGAGATGTCAAACGTCCTCAGAAAGATGAGAAG
TCAGAAATCTGTAGCAGGCGGCCTAATTGACAGGAAACTCCTGTTGCATGTTTCAAGCTATACAAATGGAAGTGACCATCGCCATTTCTCGCCTGTTCGCCCTTCTCTACGATTGGACCATCTTCCTCAAGTGCACTTCAAAGCAGTACATCTTTTATCCAAAGGATGTTTTCGTCCCAATTGGGCTCAAGTAGAAAAAA
ATTCAAATCTTGTGTAGTTTCAGATCGTTTACAGATTTTGTTAACTTCGCGTTCGCTTCAAAGAGCCTCAAAACCTCTAGGGTATGGAGGAAGGATATCCTACACGGAGGTGATTCTGCCAGAGATGGAAAATTGAATTGTTGGATGTCTGTATGTGTTGGTGTACTTGGGCTGTTGGTGTTTGATATATTGTTCTCAAT
TAAATTTTCGATGTATTTCCATTAAATTTGATCATCATTTTTTATT

>TRINITY_DN44295_c1_g2_i1 from sample A7 / Example unspliced isoform:

CACCAAGCGCGAGCTCGCTCCCCACCCTTCCACTAACTAAGGGGCTTTGCTCCTTACAAGAAGCGGATCACTGAGCTGCTAAAGGTAGGGAAGGATAAGTGTGCTCTAAAAGTGGTGAAAGTGGCGAAGAAGCCGGGAACCCACAAAAGGGCCAAGAAGAAGAGACAGGAGATGTCAAACGTCCTCAGAAAGATGAGgtt
tggctatttgggtttgcattgaacagacagaagttggggcagttttggcagttttttcgaagctggctcttcttagttcaacatttcttctcttttgggtttggcattccattaattgggtggaagacaaagctcaagaagttgaatttcggagcatttgttgatctgggtctctcgagtttaggcctttttaggctacc
ttttgatctagttctccaagtttcacattggtctttgatctgggtgtggcttcttttgaagacttgataagtcatacattgcattaatggatcaagttggtacttggaagcttttggacttgggttttgggaattttgcttgataagatagctttgagagtgtcgggcttctctgaattgagttcaattttcccttagtt
cgccttgaagaaggcaagaaaacatcaaggaccagcgacatggctgcccccaaacctgaggacattactcatccaccaatggaacaactgccaggcctggagtactgcatagattccaatccccttgccgtttattacagatatcactacagagatctccaatgggttcgataataaggaagaatacctgcaaccaacac
aaaatatgcattgaaatagtccttagttccatccgaatggcatgcacagaaggagacagagtgataatactaagtagattggtacaagaaacagagagtatggcatctgcatcatcatatgacatagatggaagtggaatggaatagcagcttgagatgtggcatccaccagttattagggattgccaagatattcaatg
cacaattaggtggctttttttcttttgggttcttgtggttttgtcttcaatgaaggctggttggatatgttccctggggtcaccagttcaaaactccttctcggcatctatctatctctatagcttgtcccgccgcccaagcactcggctgccctaattattacaccatattaatttttctctcttcgatgtttgtcagA
AGTCAGAAATCTGTAGCAGGCGGCCTAATTGACAGGAAACTCCTGTTGCATGTTTCAAGCTATACAAATGGAAGTGACCATCGCCATTTCTCGCCTGTTCGCCCTTCTCTACGATTGGACCATCTTCCTCAAGTGCACTTCAAAGCAGTACATCTTTTATCCAAAGGATGTTTTCGTCCCAATTGGGCTCAAGTAGAAAA
AAATTCAAATCTTGTGTAGTTTCAGATCGTTTACAGATTTTGTTAACTTCGCGTTCGCTTCAAAGAGCCTCAAAACCTCTAGGGTATGGAGGAAGGATATCCTACACGGAGGTGATTCTGCCAGAGATGGAAAATTGAATTGTTGGATGTCTGTATGTGTTGGTGTACTTGGGCTGTTGGTGTTTGATATATTGTTCTCA
ATTAAATTTTCGATGTATTTCCATTAAATTTGATCATCATTTTTTATTCAAATGTACATCATATTTTTTAGTGGTGTTAAAGGTATGAACTTTACACCTGAGATTTATTGAAAGGTCAGGAAAAAACCAAACACCAGCAGAACAATTGGACTTGTTTGAATAAACAGAAAAAAAAATGGTGTTTTCAT

Intron 3 GTTGGGGACT ... TGACATTTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	21.68	56	23	8
A2	34.25	24	12	13
A3	22.89	32	12	7
A4	26.03	27	12	7
A5	25.42	22	6	9
A6	24.9	92	30	31
A7	23.32	97	37	22
A8	22.71	97	26	31
A9	23.42	85	26	26
A10	17.46	52	13	9

>TRINITY_DN111673_c0_g1_i5 from sample A2 / Example spliced isoform

GGCAAAGAAAGGTAAGGTGGGTAGGAGATTCTCTTCGAGCTCTACATTTTGTTTGATTCCAAAATTCTTCTTGGGCCTTTGAAGAGGAGGAGGAGGGCACAGTGGAGGGCACATTACTATTTTGCTGTGTTTTTTGTCGTATGAGATGTAAATGTTTTGTGTGTGAAAACAGGCAACTGTTTGTTTTTATAAAATGTAAT
TGCGGGTTAAGAGTATCTGTGATTGACAGCTGCTTTCACCGTCCTACTGCCTTCCTGCCTACCTACCTCCTCTTTTTGGTTCTTTTTTTCTCCCTTATCTCCACAGCCTTCACATATTTTGCTTACTATTTCGTTCCTATATTCCCTTGGTAAAGGCTGCCTGCCCATTTCTTTGTATTTTTCACTGATTGTATCCTTTT
ATATATATTATATTTTGATATCAAGATTCTCTTTTGCTGCCTATCTAAAATACCCTGTTTCCACTGCATTCCCATCATCAATCCAAAAGGCCCCTTCATCTTCCGTTACTTCACACTGCATTCATCCATACCCTCTTGCATTGTGTCAAATCACTTTCAAAGTACTGTCTTTTATTCATTCATGATCACTTCATTGGAGA
TCATATGTTATATATTTCATAACCACCCCACTGGTTTTTCCCCTTTTTTCTCCTTATTATTCCATTTCTTGTTAGATGAAATTGAGTATACTTCCTCTGCAATTTCCTTGCTTGCATATACCCGTATAATCCTCTATATATAATCTTGGAGAGTGCTGATCATAGCTTTTACTAATTAGGTGCAGGTTTGGCTATTTGGG
TTTGCATTGAACAGACAGAAGTTGGAGGCAGTTTTGGCAGTTTTTTCGAAGCCGGGTCTTCTTAGTTCAGCATTTCTTCTCTTGGGTTTGGCGTTCCATCAATTGGGTTGAGAACGAAGCTCAAGAAGTTGAATTTTGGAGCATTTGTTGATCCGGGTCTCTTGAGTTTAGGCCTTTTTAGGCCACCTTTTGATCTAGAT
CTCTAAGTTTCACACTGGTCTTTGATCTGGGTGTGGCTTCTTTTGAAGACTTGATAAGTCATACATTGCATTCCTGGATCTAAAGTTAGTACTTGGAAGCTTTTGGACTTGGGTTTCTGGAATTTTGCTTGATTAGATAGCTTTGAGAGTGTCGGGCCTCGCCGAATTGAGTTCATTTTGCCCCTAGTTCGCTTTGAAGA
AGGTAAGAAAACATCAAGGACGAGCGACATGGCTGCACCCAAGCCCGAGGACATTACTCATCCACCAATGGAACAACTGCCGGGCCTGGAGTACTGCATAGACTCCAATCCCCCTTGGCCGGAGACAATTATATTGGGTTTTCAACACTATATTTTGATGTTGGGAACCACAGTCATGGTTCCAACTTTTCTTGTTCCAG
CAATGGGAGGAGATGATCGTGACAAGGTGCGAGTAATTCAGACATTGTTGTTTGTTGCTGGGATCAATACACTTCTACAGTCATTATTTGGAACACGTTTGCCTACAGTTGTTGGTGGTTCTTTTGCATTTATCATACCTATAACATCCATTATAAATGATTCATCCCTCCGGAGTATTCCAGATGACCATCAGAGATTT
CTTCATACCATGCGAGCTATCCAAGGAGCATTGATTGCATCATCAAGCTTGCAGATCATCCTTGGTTACAGCCAACTTTGGGGTATCTTTTCTCGGTTTTTCAGTCCACTTGGTATGACACCAGTTATAGCTTTGGTTGGACTTGGATTGTTTGAGCGTGGTTTTCCCGCGGTTGGTAAATGTGTGGAAATTGGTGTGCC
AATGCTCATTATTTTTGTTGGATTTTCACAGTATTTGAAGCATATCCATGCAAGGGAACTACCTGTTTTTGAACGCTTTCCGGTGCTTATTTGCATTACTCTTGTGTGGGCATATGCTCATCTGCTCACTGCAAGTGGAGCTTACAAGCATGTGCCTGATAAAACAAAAAACAACTGCCGCACTGATCGAGCTAATCTTA
TATCATCTGCTCCTTGGATAAAATTTCCCTATCCTCTGCAATGGGGTGCCCCGACTTTTGATGCTGGCCATACGTTTGGAATGATGTCTGCAGTTCTTGTTTCTCTTATTGAGTCAACTGGAGCATATAAGGCAGCATCACGACTTGCAAGTGCCACACCTCCTCCTGCATATGTTCTTAGTCGGGGTATTGGTTGGCAG
GGTATTGGCATACTACTAGATGGCCTTTTTGGGACAGGAACTGGCTCCACTGTTTCAGTAGAGAATGTTGGGCTTCTTGGTATTACTAGAGTAGGCAGCCGGCGTGTTGTGCAAATATCAGCTGGTTTTATGATCTTCTTTTCAATATTAGGAAAATTCGGAGCTCTTTTTGCATCAATACCATTTCCTATATTTGCTGC
ATTATACTGTGTGCTCTTTGCACTTGTTGCCGCCGTTGGTGTTTCCTTCATCCAATTCACTAACATGAACTCAATGCGAAACCTGTTCATCTTGGGAGTTTCCTTATTTCTGGGCCTGTCTATTCCACAATATTTCAATGAGTTTTATGCTACTTCTAGAGTGGGCCCCGTCCATACAAATGCAGGATGGTTTAATGACT
TCCTAAATACCATATTCTCCTCTCCACCGACAGTTGCACTAATTATTGCAGTATTTCTAGACAACACTCTAGAAGTTGAACAATCCAAGAGGGATAGAGGGATGCCGTGGTGGGTAAAATTCAGAACATTTAGAGGGGACAGTCGGAATGAGGAGTTCTACACTCTACCATTCAATCTCAATAAGTTTTTCCCTCCAACA
TGATTTTGATGATCTGTTGTGCGATTGGATAATGCCTGCCAGGAAATTGTTGAGTGAATGTACCATTATGCTATTTCAAATTGGTTCATGAAATGGGATACTCAATCCTTAGGAGATGGCGACAGGCATGCATCTCCCAATGATTGAGTCATCAATCTTGCAATTTTTTTTGAAGGAATACAAAGAAGATGATGTGAGGG
GTCAAGCGGCAGTTGCAATGGAAATCCTCTGTCATAAACATCTATTTTCTTATCTCTTGTTTGGTCTCTAGTGTAACTTTGCCATTTTTTGATCATCATTCTTCTTGTAGCACTATGAAAGTGACAGGGCATCTATCACTTTTCTGTTTCACTTTCTCTTTTGTTTGCCAGCACACAACAAAAATGATTCGTTGTGTGTT
TGACAATCGTTAATGTAATAAGATAGCAGGCTGTTGAGAACAAAGCTCTCATTCTAT

>TRINITY_DN111673_c0_g1_i3 from sample A2 / Example unspliced isoform:

CAGAAATTGATGTATTGGGTGTCAAATGAGGACACACAAAGCGTGATTGTAGGCGAATAATAATGAAGGGTTCTGCATTCAAGACCCTGGGTTTTTTTGAGTGTTAATTTGTATGGGGTTGAAGATTATATACTGTTATTATATTTAGATTCAGAACTGTTATGGGTTTTGATTATTAAGAGGAGAGAGTATATATTTGT
TAATTGGCTTTTGATGTGACAAATTTCGGATGTGTGTTGAATTAGATTGGTTTTATTGCTAATGGGTTTCTTGAATTTGCGGGCATTGGTGGTATGAGGTGAATTAGAGCAGTTTACTGTGAGATTTGATGGTATTCCAGTTGGGTTTATGGGAATATGGAGGAGAATCAATCAGCGTATAGTTATAACTAACAGGTTAC
TGTAGTTGGGATTAGTTGGATTGCAAAGAGAATTAGGTTGAGATTATGAGAGTTAATTAGCAGAAGATTACAATGACGGGGATGATTATTGGCGGGCATATCATCTGATTTTACATGCGGATTGCAAAGAAAGGTGCAGGTTTGGCTATTTGGGTTTGCATTGAACAGACAGAAGTTGGAGGCAGTTTTGGCAGTTTTTT
CGAAGCCGGGTCTTCTTAGTTCAGCATTTCTTCTCTTGGGTTTGGCGTTCCATCAATTGGGTTGAGAACGAAGCTCAAGAAGTTGAATTTTGGAGCATTTGTTGATCCGGGTCTCTTGAGTTTAGGCCTTTTTAGGCCACCTTTTGATCTAGATCTCTAAGTTTCACACTGGTCTTTGATCTGGGTGTGGCTTCTTTTGA
AGACTTGATAAGTCATACATTGCATTCCTGGATCTAAAGTTAGTACTTGGAAGCTTTTGGACTTGGGTTTCTGGAATTTTGCTTGATTAGATAGCTTTGAGAGTGTCGGGCCTCGCCGAATTGAGTTCATTTTGCCCCTAGTTCGCTTTGAAGAAGGTAAGAAAACATCAAGGACGAGCGACATGGCTGCACCCAAGCCC
GAGGACATTACTCATCCACCAATGGAACAACTGCCGGGCCTGGAGTACTGCATAGACTCCAATCCCCCTTGGCCGGAGACAATTATATTGGGTTTTCAACACTATATTTTGATGTTGGGAACCACAGTCATGGTTCCAACTTTTCTTGTTCCAGCAATGGGAGGAGATGATCGTGACAAGGTGCGAGTAATTCAGACATT
GTTGTTTGTTGCTGGGATCAATACACTTCTACAGTCATTATTTGGAACACGTTTGCCTACAGTTGTTGGTGGTTCTTTTGCATTTATCATACCTATAACATCCATTATAAATGATTCATCCCTCCGGAGTATTCCAGATGACCATCAGAGATTTCTTCATACCATGCGAGCTATCCAAGGAGCATTGATTGCATCATCAA
GCTTGCAGATCATCCTTGGTTACAGCCAACTTTGGGGTATCTTTTCTCGGTTTTTCAGTCCACTTGGTATGACACCAGTTATAGCTTTGGTTGGACTTGGATTGTTTGAGCGTGGTTTTCCCGCGGTTGGTAAATGTGTGGAAATTGGTGTGCCAATGCTCATTATTTTTGTTGGATTTTCACAGTATTTGAAGCATATC
CATGCAAGGGAACTACCTGTTTTTGAACGCTTTCCGGTGCTTATTTGCATTACTCTTGTGTGGGCATATGCTCATCTGCTCACTGCAAGTGGAGCTTACAAGCATGTGCCTGATAAAACAAAAAACAACTGCCGCACTGATCGAGCTAATCTTATATCATCTGCTCCTTGGATAAAATTTCCCTATCCTCTGCAATGGGG
TGCCCCGACTTTTGATGCTGGCCATACGTTTGGAATGATGTCTGCAGTTCTTGTTTCTCTTATTGAGTCAACTGGAGCATATAAGGCAGCATCACGACTTGCAAGTGCCACACCTCCTCCTGCATATGTTCTTAGTCGGGGTATTGGTTGGCAGGGTATTGGCATACTACTAGATGGCCTTTTTGGGACAGGAACTGGCT
CCACTGTTTCAGTAGAGAATGTTGGGCTTCTTGGTATTACTAGAGTAGGCAGCCGGCGTGTTGTGCAAATATCAGCTGGTTTTATGATCTTCTTTTCAATATTAGgttggggactcctttttccttctgagaagatatatatttacttgtttgagagaaatgtttataatcttgttcacagtccttcatattaatgtatt
tttgtatttactgacatttagGAAAATTCGGAGCTCTTTTTGCATCAATACCATTTCCTATATTTGCTGCATTATACTGTGTGCTCTTTGCACTTGTTGCCGCCGTTGGTGTTTCCTTCATCCAATTCACTAACATGAACTCAATGCGAAACCTGTTCATCTTGGGAGTTTCCTTATTTCTGGGCCTGTCTATTCCACAA
TATTTCAATGAGTTTTATGCTACTTCTAGAGTGGGCCCCGTCCATACAAATGCAGGATGGTTTAATGACTTCCTAAATACCATATTCTCCTCTCCACCGACAGTTGCACTAATTATTGCAGTATTTCTAGACAACACTCTAGAAGTTGAACAATCCAAGAGGGATAGAGGGATGCCGTGGTGGGTAAAATTCAGAACATT
TAGAGGGGACAGTCGGAATGAGGAGTTCTACACTCTACCATTCAATCTCAATAAGTTTTTCCCTCCAACATGATTTTGATGATCTGTTGTGCGATTGGATAATGCCTGCCAGGAAATTGTTGAGTGAATGTACCATTATGCTATTTCAAATTGGTTCATGAAATGGGATACTCAATCCTTAGGAGATGGCGACAGGCATG
CATCTCCCAATGATTGAGTCATCAATCTTGCAATTTTTTTTGAAGGAATACAAAGAAGATGATGTGAGGGGTCAAGCGGCAGTTGCAATGGAAATCCTCTGTCATAAACATCTATTTTCTTATCTCTTGTTTGGTCTCTAGTGTAACTTTGCCATTTTTTGATCATCATTCTTCTTGTAGCACTATGAAAGTGACAGGGC
ATCTATCACTTTTCTGTTTCACTTTCTCTTTTGTTTGCCAGCACACAACAAAAATGATTCGTTGTGTGTTTGACAATCGTTAATGTAATAAGATAGCAGGCTGTTGAGAACAAAGCTCTCATTCTAT

Intron 4 GTTTATTACA ... TGTTTGTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	69.23	2	1	8
A2	78.86	3	10.4	12
A3	62	3.2	2.4	8
A4	73.68	2.2	8.2	4
A5	-1	0	0.2	0
A6	43.77	28	21.6	22
A7	49.43	21.6	18	24
A8	45.56	18.2	5.6	25
A9	64.28	16.4	36	23
A10	59.46	11	20.4	12

>TRINITY_DN44295_c1_g2_i11 from sample A7 / Example spliced isoform

CACCAAGCGCGAGCTCGCTCCCCACCCTTCCACTAACTAAGGGGCTTTGCTCCTTACAAGAAGCGGATCACTGAGCTGCTAAAGGTAGGGAAGGATAAGTGTGCTCTAAAAGTGGTGAAAGTGGCGAAGAAGCCGGGAACCCACAAAAGGGCCAAGAAGAAGAGACAGGAGATGTCAAACGTCCTCAGAAAGATGAGAAG
TCAGAAATCTGTAGCAGGCGGCCTAATTGACAGGAAACTCCTGTTGCATGTTTCAAGCTATACAAATGGAAGTGACCATCGCCATTTCTCGCCTGTTCGCCCTTCTCTACGATTGGACCATCTTCCTCAAGTGCACTTCAAAGCAGTACATCTTTTATCCAAAGGATGTTTTCGTCCCAATTGGGCTCAAGTAGAAAAAA
ATTCAAATCTTGTGTAGTTTCAGATCGTTTACAGATTTTGTTAACTTCGCGTTCGCTTCAAAGAGCCTCAAAACCTCTAGGGTATGGAGGAAGGATATCCTACACGGAGGTGATTCTGCCAGAGATGGAAAATTGAATTGTTGGATGTCTGTATGTGTTGGTGTACTTGGGCTGTTGGTGTTTGATATATTGTTCTCAAT
TAAATTTTCGATGTATTTCCATTAAATTTGATCATCATTTTTTATT

>TRINITY_DN44295_c1_g2_i5 from sample A7 / Example unspliced isoform:

CACCAAGCGCGAGCTCGCTCCCCACCCTTCCACTAACTAAGGGGCTTTGCTCCTTACAAGAAGCGGATCACTGAGCTGCTAAAGGTAGGGAAGGATAAGTGTGCTCTAAAAGTGGTGAAAGTGGCGAAGAAGCCGGGAACCCACAAAAGGGCCAAGAAGAAGAGACAGGAGATGTCAAACGTCCTCAGAAAGATGAGgtt
tattacagatatcactacagagatctccaatgggttcgataataaggaagaatacctgcaaccaacacaaaatatgcattgaaatagtccttagttccatccgaatggcatgcacagaaggagacagagtgataatactaagtagattggtacaagaaacagagagtatggcatctgcatcatcatatgacatagatgga
agtggaatggaatagcagcttgagatgtggcatccaccagttattagggattgccaagatattcaatgcacaattaggtggctttttttcttttgggttcttgtggttttgtcttcaatgaaggctggttggatatgttccctggggtcaccagttcaaaactccttctcggcatctatctatctctatagcttgtcccg
ccgcccaagcactcggctgccctaattattacaccatattaatttttctctcttcgatgtttgtcagAAGTCAGAAATCTGTAGCAGGCGGCCTAATTGACAGGAAACTCCTGTTGCATGTTTCAAGCTATACAAATGGAAGTGACCATCGCCATTTCTCGCCTGTTCGCCCTTCTCTACGATTGGACCATCTTCCTCAA
GTGCACTTCAAAGCAGTACATCTTTTATCCAAAGGATGTTTTCGTCCCAATTGGGCTCAAGTAGAAAAAAATTCAAATCTTGTGTAGTTTCAGATCGTTTACAGATTTTGTTAACTTCGCGTTCGCTTCAAAGAGCCTCAAAACCTCTAGGGTATGGAGGAAGGATATCCTACACGGAGGTGATTCTGCCAGAGATGGAA
AATTGAATTGTTGGATGTCTGTATGTGTTGGTGTACTTGGGCTGTTGGTGTTTGATATATTGTTCTCAATTAAATTTTCGATGTATTTCCATTAAATTTGATCATCATTTTTTATTAAAATGTACATCATATTTTTGAGTGGTGTTAAAGGTATGACACCTCAAAAATTGGATCCCTCTCGATGCTTAATAGATCCAAGT
TTAAGATGGATCTATGCTGG

Intron 5 GTTTATTACA ... TGTTTGTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	70.33	2	1.5	8
A2	79.66	3	11.5	12
A3	60	4	4	8
A4	71.71	2.5	8.5	4
A5	100	0	1	0
A6	42.11	33	26	22
A7	47.55	26.5	23.5	24.5
A8	47.52	19	8.5	26
A9	63.73	17.5	38.5	23
A10	60.91	11	22.5	12

>TRINITY_DN42428_c2_g1_i3 from sample A6 / Example spliced isoform

CAGCGGGAGGGAAGGATAAGTGTGCTCTAAAAGTGGTGAAAGTGGCGAAGAAGCCGGGAACCCACAAAAGGGCCAAGAAGAAGAGACAGGAGATGTCAAACGTCCTCAGAAAGATGAGAAGTCAGAAATCTGTAGCAGGCGGCCTAATTGACAGGAAACTCCTGTTGCATGTTTCAAGCTATACAAATGGAAGTGACCAT
CGCCATTTCTCGCCTGTTCGTCCTTCTCTACGATTGGACCATCTTCCTCAAGTGCACTTCAAAGCAGTACATCTTTTATCCAAAGGATGTTTTCGTCCCAATTGGGCTCAAGTAGAAAAAAATTCAAATCTTGTGTAGTTTCAGATCGTTTACAGATTTTGTTAACTTCGCGTTCGCTTCAAAGAGCCTCAAAACCTCTA
GGGTATGGAGGAAGGATATCCTACACGGAGGTGATTCTGCCAGAGATGGAAAATTGAATTGTTGGATGTCTGTATGTGTTGGTGTACTTGGGCTGTTGGTGTTTGATATATTGTTCTCAATTAAATTTTCGATGTATTTCCATTAAATTTGATCATCATTTTTTATTCAAATGTACATCATATTTTTTAGTGGTGTTAAA
GGTATGAACTTTACACCTGAGATTTATTGAAAGGTCAGGAAAAAACCAAACACCAGCAGAACAATTGGACTTGTTTGAATAAACAGAAAAAAAAAT

>TRINITY_DN42428_c2_g1_i5 from sample A6 / Example unspliced isoform:

CAGCGGGAGGGAAGGATAAGTGTGCTCTAAAAGTGGTGAAAGTGGCGAAGAAGCCGGGAACCCACAAAAGGGCCAAGAAGAAGAGACAGGAGATGTCAAACGTCCTCAGAAAGATGAGgtttattacagatatcactacagagatctccaatgggttcgataatagggaagaatacctgcaaccaacacaaaatatgcat
tgaaatagtccttagttccatccgaatggcatgcacagaaggagacagagtgataatactaagtagattggtacaagaaacagagagtatggcatctgcatcatcatatgacatagatggaagtggaatggaatagcagcttgagatgtggcatccaccagttattagggattgccaagatattcaatgcacaattaggt
ggcttttttcttttgggttcttgtggttttgtcttcaatgaaggctggttggatatgttccctggggtcaccagttcaaaactccttctcggcatctatctatctctatagcttgtcccaccgcccaagcactcggctgccctaattattacagcatattaatttttctctcttcgatgtttgtcagAAGTCAGAAATCT
GTAGCAGGCGGCCTAATTGACAGGAAACTCCTGTTGCATGTTTCAAGCTATACAAATGGAAGTGACCATCGCCATTTCTCGCCTGTTCGTCCTTCTCTACGATTGGACCATCTTCCTCAAGTGCACTTCAAAGCAGTACATCTTTTATCCAAAAGGATGTTTTCGTCCCAATTGGGCTCAAGTAGAAAAAAATTCAAATC
TTGTGTAGTTTCAGATCGTTTACAGATTTTGTTAACTTCGCGTTCGCTTCAAAGAGCCTCAAAACCTCTAGGGTATGGAGGAAGGATATCCTACACGGAGGTGATTCTGCCAGAGATGGAAAATTGAATTGTTGGATGTCTGTATGTGTTGGTGTACTTGGGCTGTTGGTGTTTGATATATTGTTCTCAATTAAATTTTC
GATGTATTTCCATTAAATTTGATCATCATTTTTTATTCAAATGTACATCATATTTTTTAGTGGTGTTAAAGGTATGAACTTTACACCTGAGATTTATTGAAAGGTCAGGAAAAAACCAAACACCAGCAGAACAATTGGACTTGTTTGAATAAACAGAAAAAAAAAT