sp|Q8S8K9|FRIP1_ARATH ----> Protein FIP1

Intron 1 GTTTGTTGAC ... ATTGTCACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	73.71	28	75	82
A2	66.67	35	88	52
A3	63.27	45	93	62
A4	69.94	26	51	70
A5	69.23	14	35	28
A6	66.08	68	123	142
A7	65.09	85	153	164
A8	62.58	58	113	81
A9	70.07	69	170	153
A10	65	77	159	127

>TRINITY_DN111060_c1_g2_i11 from sample A2 / Example spliced isoform

TATAGCCTTAACATCTGTATCATCACAATCCTCATTTCTCTAACGTGTGATTTCGTCGTAATCCGAACCGTCGTCGCAATCCGAACCGGATTCAGCAGAGTGATCACTTCGGGAGGTTAATGGCGAGAGGATTAAGAGGTGGAATTACAGAAAATATTTCATAGCGGGAATAATGTCTCACTGGTTCACGTCTAGCGGGA
GGCAAGCGAGTCCCACCCTCCCTGCAACATCCGAAAATGCCAATATGTTTTCTGCAACATTACTTGCTTTACCAAGTTAAGAAAGAACAGATGAAGGGATTTTATATTTTCAGCCAGAAATTGAAACCAATGGTCCATCTTCCATTTGCGGTTATCTCATATGGAACTGCAATAATTTTGTTGATCATGGCATGGCACCC
TATACTGCAGGTTGCTGGATTATCGGTTTTTACTTTGCTCAGGATCGTGATATTTGTGGAAATTGTTTGGGCTGGAGCTTCAGTTAGTTTGTACATTTGGTGTATGCATCGGCACAACTCAATGGATATCCAACCAGATGTTGCAAACTCACTATATTCTGCTCTGCAACCATTTGACTCACTAGAAGAATTAAG

>TRINITY_DN111060_c1_g2_i10 from sample A2 / Example unspliced isoform:

TATAGCCTTAACATCTGTATCATCACAATCCTCATTTCTCTAACGTGTGATTTCGTCGTAATCCGAACCGTCGTCGCAATCCGAACCGGATTCAGCAGAGTGATCACTTCGGGAGGTTAATGGCGAGAGGATTAAGAGGTGGAATTACAGAAAATATTTCATAGCGGGAATAATGTCTCACTGGTTCACGTCTAGCGGGA
GGCAAGCGAGTCCCACCCTCCCTGCAACATCCGAAAATGCCAATATgtttgttgacttgctgcgggaggcccctttgtttggtcatcggaaacctgctagtatattaggaggcattttatattgtattttgctggtaggatatgctattgtgctgggattggcatcgtggatattttcttcattgacctctttacttcca
gctctgtcttccagtggcaatgtagttcttttgattgtcacagGTTTTCTGCAACATTACTTGCTTTACCAAGTTAAGAAAGAACAGATGAAGGGATTTTATATTTTCAGCCAGAAATTGAAACCAATGGTCCATCTTCCATTTGCGGTTATCTCATATGGAACTGCAATAATTTTGTTGATCATGGCATGGCACCCTAT
ACTGCAGGTTGCTGGATTATCGGTTTTTACTTTGCTCAGGATCGTGATATTTGTGGAAATTGTTTGGGCTGGAGCTTCAGTTAGTTTGTACATTTGGTGTATGCATCGGCACAACTCAATGGATATCCAACCAGATGTTGCAAACTCACTATATTCTGCTCTGCAACCATTTGACTCACTAGAAGAATTAAGATCTGGTG
ATACTGGAAGACTAGTAGAACAGCAAACCGCTTTGTTACAATATCAGCGGGAGAATCTACATTATCTAAGTGAGGAGATTCTCCGTCTGCAGGAATCCTTGAGTAAATATGAGCGTTCTGAGAATGGAAATACTCCACAGGTAGATGTTGTCCATCTATTAGCAGCTCGTGAACAAGAACTCCGTGCACTATCTGCTGAG
CGAGATCAACTTCATTCAGAGTTACATCTTGCACGGAGATTAATTGAAGAACGGGATGCTGAAATTCAACAAATTCGGATGATTAATGACCAATATGTTACCGAGAATGGCAGGCTCAGGGATATAATAAGGGAATGGAGCACACGTGCAGCAAAGGTGGAAAGGGCACTAGAGAATGAGAAGCTTTCAAATGTTGAATT
ACAAAAGAAGATTACAACGCAGAGGCATTCAAACGAAGAATCAATTTGATTATTCTTGAGACAGATACATAGCCTTTTGCTTTCTTTGTACAAAATGCTTTTTTCGTAACTATAAAATTTTCTTATGATTTTGTATAGTAATTAAGGGAGAAAACCTCTTGGTTTTCTGAAAGGAAGGTCCCGAGCCTGTTTGTATGAAA
TTATGAATATCCAACATTGACAGTGTCGCTTCTCGTGTCCATAGTTCAATCTTTTTTAAATGTTTTGTAATCAAGTCTGTTCTCCCCGAGTTTGGGACCTGAGCAATCATGTTAAAAATACTCAACTGCAAAGAAAGATGTATAACGTCTGAATCAAGAGTGAACTTGCTTCTCAAATCATTATGGATGAGGTTTGTTCA
TAACATTACATACAAACATGTTATCCTTAGGTTGCAATATATTGTTAAAAATTTTAAATGTTTCTGATAAGACTCTGGACTTGTCATACATCCATTATGACAATAATAATTAATAACAAGTGTGTTGTTGATGAGGAGTTTCAAATTTTATTAGAGATATGTCAATGAAAATATTAGTAATTAGGCAAAATGTATCAACC
ATTGTGATCAACGAATGTGCACATCATGATAGTGCTCCAGGGAAAAACTCATAGATCATATTAATAA

Intron 2 GTACAGTCCC ... ATTGCCAAAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	40.48	25	6.2	17
A2	21.95	64	4.4	18
A3	24.44	34	6.8	11
A4	21.43	22	3.2	6
A5	30	7	0.8	3
A6	29.71	220	19.6	93
A7	22.94	215	18.4	64
A8	26.71	225	14.8	82
A9	22.36	184	19.6	53
A10	25.93	100	8.8	35

>TRINITY_DN119462_c0_g1_i4 from sample A1 / Example spliced isoform

ATTTTAGGAGAGCTAGCTGTTGAAAACTTTGCTCACTTAGGGCTTCTTCTTTGATGCCCTTTGGACCCTTGACCATTTTGGTTTTTTAGGTTTTCTAGTGCTCATTTGTATCTTTTTTGGTACTTACTACATACGCTTGTTCTTTTGCAGTTTTCAGGAAGATGCTTTAGCCCTCTCAATGTTCATTCATCTTTGTACCT
CTTATAGTTCCATTGGGCATGTATGGCCACTAGTGGGCATTGATATCTGTTAAACATATTTTGGGAAAAAAGAGCTGGACATTATGGTTTTTAATATTTTATGCTGCTATTCAATTTACTTAGACTGGGATGGTGGCATTGTTGGGGAAGTATTTTGAAGATTTTTCCTGGATAAAAGAATGCATTTATATCATGTTTAG
AATTTTAAAAATAATATAAATAGATAGATTTTTTCAGCAGATTTCTAGGGACTGGATGCTTTTGTCAATGGGATATATTGTTGTATGTTGTGCCATTCTTGTGTCCTTAAGCATTTTATGGTGTGTTAAATTGCAAGGAGGTGATTATGAAAGTGTTTAACAATGAAGGAAACTCGAGATGGTGTTTATAAACATTTAAA
TGCACAGAATTTTGCTTTGTTTTAAACTTTTATATGGTTGTTTACAGGGTCAAGATAACCTATCATTATGACTATTAAAATATGGATTTTTTTGGTTATAACTATAGAGGAGAATATATAATTTGGGTTGCCCTCAAAACATTTGGTGATGCCTAATTATAATAGGGAAATTAGATCTCGTTATTTTCCAGTAATTGATG
TATTATAGGTAACTGTAAGATTACTGATGCGAGTATTTATTTTGTAGGATCGTGATATTTGTGGAAATTGTTTGGGCTGGAGCTTCAGTTAGTTTGTACATTTGGTGTATGCATCGGCACAACTCAATGGATATCCAACCAGATGTTGCAAACTCACTATATTCTGCTCTGCAACCATTTGACTCACTAGAAGAATTAAG
ATCTGGTGATACTGGAAGACTAGTAGAACAGCAAACCGCTTTGTTACAATATCAGCGGGAGAATCTACATTATCTAAGTGAGGAGATTCTCCGTCTGCAGGAATCCTTGAGTAAATATGAGCGTTCTGAGAATGGAAATACTCCACAGGTAGATGTTGTCCATCTATTAGCAGCTCGTGAACAAGAACTCCGTGCACTAT
CTGCTGAGCGAGATCAACTTCATTCAGAGTTACATCTTGCACGGAGATTAATTGAAGAACGGGATGCTGAAATTCAACAAATTCGGATGATTAATGACCAATATGTTACCGAGAATGGCAGGCTCAGGGATATAATAAGGGAATGGAGCACACGTGCAGCAAAGGTGGAAAGGGCACTAGAGAATGAGAAGCTTTCAAAT
GTTGAATTACAAAAGAAGATTACAACGCAGAGGCATTCAAACGAAGAATCAATTTGATTATTCTTGAGACAGATACATAGCCTTTTGCTTTCTTTGTACAAAATGCTTTTTTCGTAACTATAAAATTTTCTTATGATTTTGTATAGTAATTAAGGGAGAAAACCTCTTGGTTTTCTGAAAGGAAGGTCCCGAGCCTGTTT
GTATGAAATTATGAATATCCAACATTGACAGTGTCGCTTCTCGTGTCCATAGTTCAATCTTTTTTAAATGTTTTGTAATCAAGTCTGTTCTCCCCGAGTTTGGGACCTGAGCAATCATGTTAAAAATACTCAACTGCAAAGAAAGATGTATAACGTCTGAATCAAGAGTGAACTTGCTTCTCAAATCATTATGGATGAGG
TTTGTTCATAACATTACATACAAACATGTTATCCTTAGGTTGCAATATATTGTTAAAAATTTTAAATGTTTCTGATAAGACTCTGG

>TRINITY_DN119462_c0_g1_i8 from sample A1 / Example unspliced isoform:

GCGGGGGGATGCATCTAAACTAAAAATTGTACAGCGAAACATTTCGTTCATTTGAAAAAAAACTATGATATAGCCTTAACATCTGTATCATCACAATCCTCATTTCTCTAACGTGTGATTTCGTCGTAATCCGAACCGTCGTCGCAATCCGAACCGGATTCAGCAGAGTGATCACTTCGGGAGGTTAATGGCGAGAGGAT
TAAGAGGTGGAATTACAGAAAATATTTCATAGCGGGAATAATGTCTCACTGGTTCACGTCTAGCGGGAGGCAAGCGAGTCCCACCCTCCCTGCAACATCCGAAAATGCCAATATGTTTGTTGACTTGCTGCGGGAGGCCCCTTTGTTTGGTCATCGGAAACCTGCTAGTATATTAGGAGGCATTTTATATTGTATTTTGC
TGGTAGGATATGCTATTGTGCTGGGATTGGCATCGTGGATATTTTCTTCATTGACCTCTTTACTTCCAGCTCTGTCTTCCAGTGGCAATGTAGTTCTTTTGATTGTCACAGGTTTTCTGCAACATTACTTGCTTTACCAAGTTAAGAAAGAACAGATGAAGGGATTTTATATTTTCAGCCAGAAATTGAAACCAATGGTC
CATCTTCCATTTGCGGTTATCTCATATGGAACTGCAATAATTTTGTTGATCATGGCATGGCACCCTATACTGCAGGTTGCTGGATTATCGGTTTTTACTTTGCTCAGGATCGTGATATTTGTGGAAATTGTTTGGGCTGGAGCTTCAGTTAGTTTGTACATTTGGTGTATGCATCGGCACAACTCAATGGATATCCAACC
AGATGTTGCAAACTCACTATATTCTGCTCTGCAACCATTTGACTCACTAGAAGAATTAAGATCTGGTGATACTGGAAGACTAGTAGAACAGCAAACCGCTTTGTTACAATATCAGCGGGAGAATCTACATTATCTAAGTGAGGAGATTCTCCGTCTGCAGGAATCCTTGAGTAAATATGAGCGTTCTGAGAATGGAAATA
CTCCACAGGTAGATGTTGTCCATCTATTAGCAGCTCGTGAACAAGAACTCCGTGCACTATCTGCTGAGCGAGATCAACTTCATTCAGAGTTACATCTTGCACGGAGATTAATTGAAGAACGGGATGCTGAAATTCAACAAATTCGGATGATTAATGACCAATATGTTACCGAGAATGGCAGGCTCAGGGATATAATAAGG
GAATGGAGCACACGTGCAGCAAAGgtacagtccctagtcttgtttagtttagtagagttttcatcaatgatttggagggttgttcataagttattgtggtgagttaatgttttgactaattatgtgtattttggatggcataattaaacttgtgattgccaaagGTGGAAAGGGCACTAGAGAATGAGAAGCTTTCAAAT
GTTGAATTACAAAAGAAGATTACAACGCAGAGGCATTCAAACGAAGAATCAATTTGATTATTCTTGAGACAGATACATAGCCTTTTGCTTTCTTTGTACAAAATGCTTTTTTCGTAACTATAAAATTTTCTTATGATTTTGTATAGTAATTAAGGGAGAAAACCTCTTGGTTTTCTGAAAGGAAGGTCCCGAGCCTGTTT
GTATGAAATTATGAATATCCAACATTGACAGTGTCGCTTCTCGTGTCCATAGTTCAATCTTTTTTAAATGTTTTGTAATCAAGTCTGTTCTCCCCGAGTTTGGGACCTGAGCAATCATGTTAAAAATACTCAACTGCAAAGAAAGATGTATAACGTCTGAATCAAGAGTGAACTTGCTTCTCAAATCATTATGGATGAGG
TTTGTTCATAACATTACATACAAACATGTTATCCTTAGGTTGCAATATATTGTTAAAAATTTTAAATGTTTCTGATAAGACTCTGG

Intron 3 GTTTGTTGAC ... ATTGTCACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	73.95	28	77	82
A2	66.98	35	91	51
A3	63.56	45	95	62
A4	69.23	26	51	66
A5	69.57	14	36	28
A6	64.68	68	109	140
A7	63.68	85	137	161
A8	61.59	58	106	80
A9	69.47	69	161	153
A10	64.19	77	152	124

>TRINITY_DN111060_c1_g2_i11 from sample A2 / Example spliced isoform

TATAGCCTTAACATCTGTATCATCACAATCCTCATTTCTCTAACGTGTGATTTCGTCGTAATCCGAACCGTCGTCGCAATCCGAACCGGATTCAGCAGAGTGATCACTTCGGGAGGTTAATGGCGAGAGGATTAAGAGGTGGAATTACAGAAAATATTTCATAGCGGGAATAATGTCTCACTGGTTCACGTCTAGCGGGA
GGCAAGCGAGTCCCACCCTCCCTGCAACATCCGAAAATGCCAATATGTTTTCTGCAACATTACTTGCTTTACCAAGTTAAGAAAGAACAGATGAAGGGATTTTATATTTTCAGCCAGAAATTGAAACCAATGGTCCATCTTCCATTTGCGGTTATCTCATATGGAACTGCAATAATTTTGTTGATCATGGCATGGCACCC
TATACTGCAGGTTGCTGGATTATCGGTTTTTACTTTGCTCAGGATCGTGATATTTGTGGAAATTGTTTGGGCTGGAGCTTCAGTTAGTTTGTACATTTGGTGTATGCATCGGCACAACTCAATGGATATCCAACCAGATGTTGCAAACTCACTATATTCTGCTCTGCAACCATTTGACTCACTAGAAGAATTAAG

>TRINITY_DN111060_c1_g2_i1 from sample A2 / Example unspliced isoform:

TATAGCCTTAACATCTGTATCATCACAATCCTCATTTCTCTAACGTGTGATTTCGTCGTAATCCGAACCGTCGTCGCAATCCGAACCGGATTCAGCAGAGTGATCACTTCGGGAGGTTAATGGCGAGAGGATTAAGAGGTGGAATTACAGAAAATATTTCATAGCGGGAATAATGTCTCACTGGTTCACGTCTAGCGGGA
GGCAAGCGAGTCCCACCCTCCCTGCAACATCCGAAAATGCCAATATgtttgttgacttgctgcgggaggcccctttgtttggtcatcggaaacctgctagtatattaggaggcattttatattgtattttgctggtacgcctattcgatgaatatatttttcatgtcaaacaaatgaagatggtttttgaggtaggatat
gctattgtgctgggattggcatcgtggatattttcttcattgacctctttacttccagctctgtcttccagtggcaatgtagttcttttgattgtcacagGTTTTCTGCAACATTACTTGCTTTACCAAGTTAAGAAAGAACAGATGAAGGGATTTTATATTTTCAGCCAGAAATTGAAACCAATGGTCCATCTTCCATT
TGCGGTTATCTCATATGGAACTGCAATAATTTTGTTGATCATGGCATGGCACCCTATACTGCAGGTTGCTGGATTATCGGTTTTTACTTTGCTCAGGATCGTGATATTTGTGGAAATTGTTTGGGCTGGAGCTTCAGTTAGTTTGTACATTTGGTGTATGCATCGGCACAACTCAATGGATATCCAACCAGATGTTGCAA
ACTCACTATATTCTGCTCTGCAACCATTTGACTCACTAGAAGAATTAAGATCTGGTGATACTGGAAGACTAGTAGAACAGCAAACCGCTTTGTTACAATATCAGCGGGAGAATCTACATTATCTAAGTGAGGAGATTCTCCGTCTGCAGGAATCCTTGAGTAAATATGAGCGTTCTGAGAATGGAAATACTCCACAGGTA
GATGTTGTCCATCTATTAGCAGCTCGTGAACAAGAACTCCGTGCACTATCTGCTGAGCGAGATCAACTTCATTCAGAGTTACATCTTGCACGGAGATTAATTGAAGAACGGGATGCTGAAATTCAACAAATTCGGATGATTAATGACCAATATGTTACCGAGAATGGCAGGCTCAGGGATATAATAAGGGAATGGAGCAC
ACGTGCAGCAAAGGTGGAAAGGGCACTAGAGAATGAGAAGCTTTCAAATGTTGAATTACAAAAGAAGATTACAACGCAGAGGCATTCAAACGAAGAATCAATTTGATTATTCTTGAGACAGATACATAGCCTTTTGCTTTCTTTGTACAAAATGCTTTTTTCGTAACTATAAAATTTTCTTATGATTTTGTATAGTAATT
AAGGGAGAAAACCTCTTGGTTTTCTGAAAGGAAGGTCCCGAGCCTGTTTGTATGAAATTATGAATATCCAACATTGACAGTGTCGCTTCTCGTGTCCATAGTTCAATCTTTTTTAAATGTTTTGTAATCAAGTCTGTTCTCCCCGAGTTTGGGACCTGAGCAATCATGTTAAAAATACTCAACTGCAAAGAAAGATGTAT
AACGTCTGAATCAAGAGTGAACTTGCTTCTCAAATCATTATGGATGAGGTTTGTTCATAACATTACATACAAACATGTTATCCTTAGGTTGCAATATATTGTTAAAAATTTTAAATGTTTCTGATAAGACTCTGGACTTGTCATACATCCATTATGACAATAATAATTAATAACAAGTGTGTTGTTGATGAGGAGTTTCA
AATTTTATTAGAGATATGTCAATGAAAATATTAGTAATTAGGCAAAATGTATCAACCATTGTGATCAACGAATGTGCACATCATGATAGTGCTCCAGGGAAAAACTCATAGATCATATTAATAA

Intron 4 GTAGATGTTG ... ATCTGCTGAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	63.16	14	22	26
A2	55.93	13	17	16
A3	64.38	13	19	28
A4	72.88	8	25	18
A5	-1	0	0	0
A6	72.86	27	64	81
A7	60.45	53	78	84
A8	63.36	61	94	117
A9	61.9	48	82	74
A10	57.38	39	48	57

>TRINITY_DN37948_c0_g1_i1 from sample A7 / Example spliced isoform

CAAGTTTTACCGCTTTAAAAAATGGATGCATCTAAACTAAAAATTGTACAGCGAAACATTTCGTTCATTTGAAAAAAAACTATGATATAGCCTTAACATCTGTATCATCACAATCCTCATTTCTCTAACGTGTGATTTCGTCGTAATCCGAACCGTCGTCGCAATCCGAACCGGATTCAGCAGAGTGATCACTTCGGGAG
GTTAATGGCGAGAGGATTAAGAGGTGGAATTACAGAAAATATTTCATAGCGGGAATAATGTCTCACTGGTTCACGTCTAGCGGGAGGCAAGCGAGTCCCACCCTCCCTGCAACATCCGAAAATGCCAATATGTTTGTTGACTTGCTGCGGGAGGCCCCTTTGTTTGGTCATCGGAAACCTGCTAGTATATTAGGAGGCAT
TTTATATTGTATTTTGCTGGTAGGATATGCTATTGTGCTGGGATTGGCATCGTGGATATTTTCTTCATTGACCTCTTTACTTCCAGCTCTGTCTTCCAGTGGCAATGTAGTTCTTTTGATTGTCACAGGTTTTCTGCAACATTACTTGCTTTACCAAGTTAAGAAAGAACAGATGAAGGGATTTTATATTTTCAGCCAGA
AATTGAAACCAATGGTCCATCTTCCATTTGCGGTTATCTCATATGGAACTGCAATAATTTTGTTGATCATGGCATGGCACCCTATACTGCAGGTTGCTGGATTATCGGTTTTTACTTTGCTCAGGATCGTGATATTTGTGGAAATTGTTTGGGCTGGAGCTTCAGTTAGTTTGTACATTTGGTGTATGCATCGGCACAAC
TCAATGGATATCCAACCAGATGTTGCAAACTCACTATATTCTGCTCTGCAACCATTTGACTCACTAGAAGAATTAAGATCTGGTGATACTGGAAGACTAGTAGAACAGCAAACCGCTTTGTTACAATATCAGCGGGAGAATCTACATTATCTAAGTGAGGAGATTCTCCGTCTGCAGGAATCCTTGAGTAAATATGAGCG
TTCTGAGAATGGAAATACTCCACAGCGAGATCAACTTCATTCAGAGTTACATCTTGCACGGAGATTAATTGAAGAACGGGATGCTGAAATTCAACAAATTCGGATGATTAATGACCAATATGTTACCGAGAATGGCAGGCTCAGGGATATAATAAGGGAATGGAGCACACGTGCAGCAAAGGTGGAAAGGGCACTAGAGA
ATGAGAAGCTTTCAAATGTTGAATTACAAAAGAAGATTACAACGCAGAGGCATTCAAACGAAGAATCAATTTGATTATTCTTGAGACAGATACATAGCCTTTTGCTTTCTTTGTACAAAATGCTTTTTTCGTAACTATAAAATTTTCTTATGATTTTGTATAGTAATTAAGGGAGAAAACCTCTTGGTTTTCTGAAAGGA
AGGTCCCGAGCCTGTTTGTATGAAATTATGAATATCCAACATTGACAGTGTCGCTTCTCGTGTCCATAGTTCAATCTTTTTTAAATGTTTTGTAATCAAGTCTGTTCTCCCCGAGTTTGGGACCTGAGCAATCATGTTAAAAATACTCAACTGCAAAGAAAGATGTATAACGTCTGAATCAAGAGTGAACTTGCTTCTCA
AATCATTATGGATGAGGTTTGTTCATAACATTACATACAAACATGTTATCCTTAGGTTGCAATATATTGTTAAAAATTTTAAATGTTT

>TRINITY_DN37948_c0_g1_i7 from sample A7 / Example unspliced isoform:

CAAGTTTTACCGCTTTAAAAAATGGATGCATCTAAACTAAAAATTGTACAGCGAAACATTTCGTTCATTTGAAAAAAAACTATGATATAGCCTTAACATCTGTATCATCACAATCCTCATTTCTCTAACGTGTGATTTCGTCGTAATCCGAACCGTCGTCGCAATCCGAACCGGATTCAGCAGAGTGATCACTTCGGGAG
GTTAATGGCGAGAGGATTAAGAGGTGGAATTACAGAAAATATTTCATAGCGGGAATAATGTCTCACTGGTTCACGTCTAGCGGGAGGCAAGCGAGTCCCACCCTCCCTGCAACATCCGAAAATGCCAATATGTTTGTTGACTTGCTGCGGGAGGCCCCTTTGTTTGGTCATCGGAAACCTGCTAGTATATTAGGAGGCAT
TTTATATTGTATTTTGCTGGTACGCCTATTCGATGAATATATTTTTCATGTCAAACAAATGAAGATGGTTTTTGAGGTAGGATATGCTATTGTGCTGGGATTGGCATCGTGGATATTTTCTTCATTGACCTCTTTACTTCCAGCTCTGTCTTCCAGTGGCAATGTAGTTCTTTTGATTGTCACAGGTTTTCTGCAACATT
ACTTGCTTTACCAAGTTAAGAAAGAACAGATGAAGGGATTTTATATTTTCAGCCAGAAATTGAAACCAATGGTCCATCTTCCATTTGCGGTTATCTCATATGGAACTGCAATAATTTTGTTGATCATGGCATGGCACCCTATACTGCAGGTTGCTGGATTATCGGTTTTTACTTTGCTCAGGATCGTGATATTTGTGGAA
ATTGTTTGGGCTGGAGCTTCAGTTAGTTTGTACATTTGGTGTATGCATCGGCACAACTCAATGGATATCCAACCAGATGTTGCAAACTCACTATATTCTGCTCTGCAACCATTTGACTCACTAGAAGAATTAAGATCTGGTGATACTGGAAGACTAGTAGAACAGCAAACCGCTTTGTTACAATATCAGCGGGAGAATCT
ACATTATCTAAGTGAGGAGATTCTCCGTCTGCAGGAATCCTTGAGTAAATATGAGCGTTCTGAGAATGGAAATACTCCACAGgtagatgttgtccatctattagcagctcgtgaacaagaactccgtgcactatctgctgagCGAGATCAACTTCATTCAGAGTTACATCTTGCACGGAGATTAATTGAAGAACGGGATG
CTGAAATTCAACAAATTCGGATGATTAATGACCAATATGTTACCGAGAATGGCAGGCTCAGGGATATAATAAGGGAATGGAGCACACGTGCAGCAAAGGTGGAAAGGGCACTAGAGAATGAGAAGCTTTCAAATGTTGAATTACAAAAGAAGATTACAACGCAGAGGCATTCAAACGAAGAATCAATTTGATTATTCTTG
AGACAGATACATAGCCTTTTGCTTTCTTTGTACAAAATGCTTTTTTCGTAACTATAAAATTTTCTTATGATTTTGTATAGTAATTAAGGGAGAAAACCTCTTGGTTTTCTGAAAGGAAGGTCCCGAGCCTGTTTGTATGAAATTATGAATATCCAACATTGACAGTGTCGCTTCTCGTGTCCATAGTTCAATCTTTTTTA
AATGTTTTGTAATCAAGTCTGTTCTCCCCGAGTTTGGGACCTGAGCAATCATGTTAAAAATACTCAACTGCAAAGAAAGATGTATAACGTCTGAATCAAGAGTGAACTTGCTTCTCAAATCATTATGGATGAGGTTTGTTCATAACATTACATACAAACATGTTATCCTTAGGTTGCAATATATTGTTAAAAATTTTAAA
TGTTT

Intron 5 GTACGCCTAT ... GCTTTTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	42.11	52	45	30.7
A2	33.95	51	35	17.4
A3	35.64	41	34	11.4
A4	37.64	35	20	22.3
A5	40	18	12	12
A6	26.99	87	30	34.4
A7	26.86	99	41	31.8
A8	24.8	71	31	15.8
A9	29.81	115	67	30.7
A10	24.15	84	24	29.5

>TRINITY_DN119462_c0_g1_i10 from sample A1 / Example spliced isoform

GCGGGGGGATGCATCTAAACTAAAAATTGTACAGCGAAACATTTCGTTCATTTGAAAAAAAACTATGATATAGCCTTAACATCTGTATCATCACAATCCTCATTTCTCTAACGTGTGATTTCGTCGTAATCCGAACCGTCGTCGCAATCCGAACCGGATTCAGCAGAGTGATCACTTCGGGAGGTTAATGGCGAGAGGAT
TAAGAGGTGGAATTACAGAAAATATTTCATAGCGGGAATAATGTCTCACTGGTTCACGTCTAGCGGGAGGCAAGCGAGTCCCACCCTCCCTGCAACATCCGAAAATGCCAATATGTTTGTTGACTTGCTGCGGGAGGCCCCTTTGTTTGGTCATCGGAAACCTGCTAGTATATTAGGAGGCATTTTATATTGTATTTTGC
TGGTAGGATATGCTATTGTGCTGGGATTGGCATCGTGGATATTTTCTTCATTGACCTCTTTACTTCCAGCTCTGTCTTCCAGTGGCAATGTAGTTCTTTTGATTGTCACAGGTTTTCTGCAACATTACTTGCTTTACCAAGTTAAGAAAGAACAGATGAAGGGATTTTATATTTTCAGCCAGAAATTGAAACCAATGGTC
CATCTTCCATTTGCGGTTATCTCATATGGAACTGCAATAATTTTGTTGATCATGGCATGGCACCCTATACTGCAGGTTGCTGGATTATCGGTTTTTACTTTGCTCAGGATCGTGATATTTGTGGAAATTGTTTGGGCTGGAGCTTCAGTTAGTTTGTACATTTGGTGTATGCATCGGCACAACTCAATGGATATCCAACC
AGATGTTGCAAACTCACTATATTCTGCTCTGCAACCATTTGACTCACTAGAAGAATTAAGATCTGGTGATACTGGAAGACTAGTAGAACAGCAAACCGCTTTGTTACAATATCAGCGGGAGAATCTACATTATCTAAGTGAGGAGATTCTCCGTCTGCAGGAATCCTTGAGTAAATATGAGCGTTCTGAGAATGGAAATA
CTCCACAGGTAGATGTTGTCCATCTATTAGCAGCTCGTGAACAAGAACTCCGTGCACTATCTGCTGAGCGAGATCAACTTCATTCAGAGTTACATCTTGCACGGAGATTAATTGAAGAACGGGATGCTGAAATTCAACAAATTCGGATGATTAATGACCAATATGTTACCGAGAATGGCAGGCTCAGGGATATAATAAGG
GAATGGAGCACACGTGCAGCAAAGGTGGAAAGGGCACTAGAGAATGAGAAGCTTTCAAATGTTGAATTACAAAAGAAGATTACAACGCAGAGGCATTCAAACGAAGAATCAATTTGATTATTCTTGAGACAGATACATAGCCTTTTGCTTTCTTTGTACAAAATGCTTTTTTCGTAACTATAAAATTTTCTTATGATTTT
GTATAGTAATTAAGGGAGAAAACCTCTTGGTTTTCTGAAAGGAAGGTCCCGAGCCTGTTTGTATGAAATTATGAATATCCAACATTGACAGTGTCGCTTCTCGTGTCCATAGTTCAATCTTTTTTAAATGTTTTGTAATCAAGTCTGTTCTCCCCGAGTTTGGGACCTGAGCAATCATGTTAAAAATACTCAACTGCAAA
GAAAGATGTATAACGTCTGAATCAAGAGTGAACTTGCTTCTCAAATCATTATGGATGAGGTTTGTTCATAACATTACATACAAACATGTTATCCTTAGGTTGCAATATATTGTTAAAAATTTTAAATGTTTCTGATAAGACTCTGG

>TRINITY_DN119462_c0_g1_i23 from sample A1 / Example unspliced isoform:

GCGGGGGGATGCATCTAAACTAAAAATTGTACAGCGAAACATTTCGTTCATTTGAAAAAAAACTATGATATAGCCTTAACATCTGTATCATCACAATCCTCATTTCTCTAACGTGTGATTTCGTCGTAATCCGAACCGTCGTCGCAATCCGAACCGGATTCAGCAGAGTGATCACTTCGGGAGGTTAATGGCGAGAGGAT
TAAGAGGTGGAATTACAGAAAATATTTCATAGCGGGAATAATGTCTCACTGGTTCACGTCTAGCGGGAGGCAAGCGAGTCCCACCCTCCCTGCAACATCCGAAAATGCCAATATGTTTGTTGACTTGCTGCGGGAGGCCCCTTTGTTTGGTCATCGGAAACCTGCTAGTATATTAGGAGGCATTTTATATTGTATTTTGC
TGgtacgcctattcgatgaatatatttttcatgtcaaacaaatgaagatggtttttgagataagcatcaacttcttctcaagccttcagcattcctagggttctgatattatatattttgtcatccgattcgcacctctggatttacaaaacgaatctctattaagacaatatgaaattgcaatctcagtatattcagat
ctctaaattcttatattctttggatgcttttgcagGTAGGATATGCTATTGTGCTGGGATTGGCATCGTGGATATTTTCTTCATTGACCTCTTTACTTCCAGCTCTGTCTTCCAGTGGCAATGTAGTTCTTTTGATTGTCACAGGTTTTCTGCAACATTACTTGCTTTACCAAGTTAAGAAAGAACAGATGAAGGGATTT
TATATTTTCAGCCAGAAATTGAAACCAATGGTCCATCTTCCATTTGCGGTTATCTCATATGGAACTGCAATAATTTTGTTGATCATGGCATGGCACCCTATACTGCAGGTTGCTGGATTATCGGTTTTTACTTTGCTCAGGATCGTGATATTTGTGGAAATTGTTTGGGCTGGAGCTTCAGTTAGTTTGTACATTTGGTG
TATGCATCGGCACAACTCAATGGATATCCAACCAGATGTTGCAAACTCACTATATTCTGCTCTGCAACCATTTGACTCACTAGAAGAATTAAGATCTGGTGATACTGGAAGACTAGTAGAACAGCAAACCGCTTTGTTACAATATCAGCGGGAGAATCTACATTATCTAAGTGAGGAGATTCTCCGTCTGCAGGAATCCT
TGAGTAAATATGAGCGTTCTGAGAATGGAAATACTCCACAGGTAGATGTTGTCCATCTATTAGCAGCTCGTGAACAAGAACTCCGTGCACTATCTGCTGAGCGAGATCAACTTCATTCAGAGTTACATCTTGCACGGAGATTAATTGAAGAACGGGATGCTGAAATTCAACAAATTCGGATGATTAATGACCAATATGTT
ACCGAGAATGGCAGGCTCAGGGATATAATAAGGGAATGGAGCACACGTGCAGCAAAGGTGGAAAGGGCACTAGAGAATGAGAAGCTTTCAAATGTTGAATTACAAAAGAAGATTACAACGCAGAGGCATTCAAACGAAGAATCAATTTGATTATTCTTGAGACAGATACATAGCCTTTTGCTTTCTTTGTACAAAATGCT
TTTTTCGTAACTATAAAATTTTCTTATGATTTTGTATAGTAATTAAGGGAGAAAACCTCTTGGTTTTCTGAAAGGAAGGTCCCGAGCCTGTTTGTATGAAATTATGAATATCCAACATTGACAGTGTCGCTTCTCGTGTCCATAGTTCAATCTTTTTTAAATGTTTTGTAATCAAGTCTGTTCTCCCCGAGTTTGGGACC
TGAGCAATCATGTTAAAAATACTCAACTGCAAAGAAAGATGTATAACGTCTGAATCAAGAGTGAACTTGCTTCTCAAATCATTATGGATGAGGTTTGTTCATAACATTACATACAAACATGTTATCCTTAGGTTGCAATATATTGTTAAAAATTTTAAATGTTTCTGATAAGACTCTGG

Intron 6 GTACGCCTAT ... GGTTTTTGAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	34.64	49.3	27	25
A2	33.37	48.5	27.3	21
A3	39.05	39.4	27.3	23
A4	36.75	34.3	19	20.8
A5	45.77	17.3	15	14
A6	32.65	84.3	29.7	52
A7	31.85	96	38.7	51
A8	34.4	68.8	34	38
A9	34.06	110.3	59.7	54
A10	30.25	81.9	27	44

>TRINITY_DN111060_c1_g2_i10 from sample A2 / Example spliced isoform

TATAGCCTTAACATCTGTATCATCACAATCCTCATTTCTCTAACGTGTGATTTCGTCGTAATCCGAACCGTCGTCGCAATCCGAACCGGATTCAGCAGAGTGATCACTTCGGGAGGTTAATGGCGAGAGGATTAAGAGGTGGAATTACAGAAAATATTTCATAGCGGGAATAATGTCTCACTGGTTCACGTCTAGCGGGA
GGCAAGCGAGTCCCACCCTCCCTGCAACATCCGAAAATGCCAATATGTTTGTTGACTTGCTGCGGGAGGCCCCTTTGTTTGGTCATCGGAAACCTGCTAGTATATTAGGAGGCATTTTATATTGTATTTTGCTGGTAGGATATGCTATTGTGCTGGGATTGGCATCGTGGATATTTTCTTCATTGACCTCTTTACTTCCA
GCTCTGTCTTCCAGTGGCAATGTAGTTCTTTTGATTGTCACAGGTTTTCTGCAACATTACTTGCTTTACCAAGTTAAGAAAGAACAGATGAAGGGATTTTATATTTTCAGCCAGAAATTGAAACCAATGGTCCATCTTCCATTTGCGGTTATCTCATATGGAACTGCAATAATTTTGTTGATCATGGCATGGCACCCTAT
ACTGCAGGTTGCTGGATTATCGGTTTTTACTTTGCTCAGGATCGTGATATTTGTGGAAATTGTTTGGGCTGGAGCTTCAGTTAGTTTGTACATTTGGTGTATGCATCGGCACAACTCAATGGATATCCAACCAGATGTTGCAAACTCACTATATTCTGCTCTGCAACCATTTGACTCACTAGAAGAATTAAGATCTGGTG
ATACTGGAAGACTAGTAGAACAGCAAACCGCTTTGTTACAATATCAGCGGGAGAATCTACATTATCTAAGTGAGGAGATTCTCCGTCTGCAGGAATCCTTGAGTAAATATGAGCGTTCTGAGAATGGAAATACTCCACAGGTAGATGTTGTCCATCTATTAGCAGCTCGTGAACAAGAACTCCGTGCACTATCTGCTGAG
CGAGATCAACTTCATTCAGAGTTACATCTTGCACGGAGATTAATTGAAGAACGGGATGCTGAAATTCAACAAATTCGGATGATTAATGACCAATATGTTACCGAGAATGGCAGGCTCAGGGATATAATAAGGGAATGGAGCACACGTGCAGCAAAGGTGGAAAGGGCACTAGAGAATGAGAAGCTTTCAAATGTTGAATT
ACAAAAGAAGATTACAACGCAGAGGCATTCAAACGAAGAATCAATTTGATTATTCTTGAGACAGATACATAGCCTTTTGCTTTCTTTGTACAAAATGCTTTTTTCGTAACTATAAAATTTTCTTATGATTTTGTATAGTAATTAAGGGAGAAAACCTCTTGGTTTTCTGAAAGGAAGGTCCCGAGCCTGTTTGTATGAAA
TTATGAATATCCAACATTGACAGTGTCGCTTCTCGTGTCCATAGTTCAATCTTTTTTAAATGTTTTGTAATCAAGTCTGTTCTCCCCGAGTTTGGGACCTGAGCAATCATGTTAAAAATACTCAACTGCAAAGAAAGATGTATAACGTCTGAATCAAGAGTGAACTTGCTTCTCAAATCATTATGGATGAGGTTTGTTCA
TAACATTACATACAAACATGTTATCCTTAGGTTGCAATATATTGTTAAAAATTTTAAATGTTTCTGATAAGACTCTGGACTTGTCATACATCCATTATGACAATAATAATTAATAACAAGTGTGTTGTTGATGAGGAGTTTCAAATTTTATTAGAGATATGTCAATGAAAATATTAGTAATTAGGCAAAATGTATCAACC
ATTGTGATCAACGAATGTGCACATCATGATAGTGCTCCAGGGAAAAACTCATAGATCATATTAATAA

>TRINITY_DN111060_c1_g2_i1 from sample A2 / Example unspliced isoform:

TATAGCCTTAACATCTGTATCATCACAATCCTCATTTCTCTAACGTGTGATTTCGTCGTAATCCGAACCGTCGTCGCAATCCGAACCGGATTCAGCAGAGTGATCACTTCGGGAGGTTAATGGCGAGAGGATTAAGAGGTGGAATTACAGAAAATATTTCATAGCGGGAATAATGTCTCACTGGTTCACGTCTAGCGGGA
GGCAAGCGAGTCCCACCCTCCCTGCAACATCCGAAAATGCCAATATGTTTGTTGACTTGCTGCGGGAGGCCCCTTTGTTTGGTCATCGGAAACCTGCTAGTATATTAGGAGGCATTTTATATTGTATTTTGCTGgtacgcctattcgatgaatatatttttcatgtcaaacaaatgaagatggtttttgagGTAGGATAT
GCTATTGTGCTGGGATTGGCATCGTGGATATTTTCTTCATTGACCTCTTTACTTCCAGCTCTGTCTTCCAGTGGCAATGTAGTTCTTTTGATTGTCACAGGTTTTCTGCAACATTACTTGCTTTACCAAGTTAAGAAAGAACAGATGAAGGGATTTTATATTTTCAGCCAGAAATTGAAACCAATGGTCCATCTTCCATT
TGCGGTTATCTCATATGGAACTGCAATAATTTTGTTGATCATGGCATGGCACCCTATACTGCAGGTTGCTGGATTATCGGTTTTTACTTTGCTCAGGATCGTGATATTTGTGGAAATTGTTTGGGCTGGAGCTTCAGTTAGTTTGTACATTTGGTGTATGCATCGGCACAACTCAATGGATATCCAACCAGATGTTGCAA
ACTCACTATATTCTGCTCTGCAACCATTTGACTCACTAGAAGAATTAAGATCTGGTGATACTGGAAGACTAGTAGAACAGCAAACCGCTTTGTTACAATATCAGCGGGAGAATCTACATTATCTAAGTGAGGAGATTCTCCGTCTGCAGGAATCCTTGAGTAAATATGAGCGTTCTGAGAATGGAAATACTCCACAGGTA
GATGTTGTCCATCTATTAGCAGCTCGTGAACAAGAACTCCGTGCACTATCTGCTGAGCGAGATCAACTTCATTCAGAGTTACATCTTGCACGGAGATTAATTGAAGAACGGGATGCTGAAATTCAACAAATTCGGATGATTAATGACCAATATGTTACCGAGAATGGCAGGCTCAGGGATATAATAAGGGAATGGAGCAC
ACGTGCAGCAAAGGTGGAAAGGGCACTAGAGAATGAGAAGCTTTCAAATGTTGAATTACAAAAGAAGATTACAACGCAGAGGCATTCAAACGAAGAATCAATTTGATTATTCTTGAGACAGATACATAGCCTTTTGCTTTCTTTGTACAAAATGCTTTTTTCGTAACTATAAAATTTTCTTATGATTTTGTATAGTAATT
AAGGGAGAAAACCTCTTGGTTTTCTGAAAGGAAGGTCCCGAGCCTGTTTGTATGAAATTATGAATATCCAACATTGACAGTGTCGCTTCTCGTGTCCATAGTTCAATCTTTTTTAAATGTTTTGTAATCAAGTCTGTTCTCCCCGAGTTTGGGACCTGAGCAATCATGTTAAAAATACTCAACTGCAAAGAAAGATGTAT
AACGTCTGAATCAAGAGTGAACTTGCTTCTCAAATCATTATGGATGAGGTTTGTTCATAACATTACATACAAACATGTTATCCTTAGGTTGCAATATATTGTTAAAAATTTTAAATGTTTCTGATAAGACTCTGGACTTGTCATACATCCATTATGACAATAATAATTAATAACAAGTGTGTTGTTGATGAGGAGTTTCA
AATTTTATTAGAGATATGTCAATGAAAATATTAGTAATTAGGCAAAATGTATCAACCATTGTGATCAACGAATGTGCACATCATGATAGTGCTCCAGGGAAAAACTCATAGATCATATTAATAA