sp|Q9C810|Y1342_ARATH ----> PHD finger protein At1g33420

Intron 1 GTATGTGATG ... GTTTTTTTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	12.15	94	5	21
A2	16.18	57	11	11
A3	15.53	87	8	24
A4	16.67	50	6	14
A5	21.43	22	5	7
A6	13.18	112	11	23
A7	15.18	204	23	50
A8	14.85	86	10	20
A9	13.71	157.3	15	35
A10	14.29	159	23	30

>TRINITY_DN98987_c0_g1_i3 from sample A4 / Example spliced isoform

TGAAAGGCGACCCGCCCCAAACCAAAGAACACAAGTCGAAGAAGCAGCAGCAGCGGCGGCAGAGAAAGAACCAGAAACAGCACAGGGAGAACCAGGCGAAGAAACATCAGCTGCCCCCGAGCGGTATGGTGGTCAGTAGGCCCTTCAAACGAGTAAAAAGAGTCGTGGCAGACTACTATTCTTTCCATAGCTTCGGCACC
AGCGCTTGTCCCGCTGGGGATCGAACCTTTGTCGGGCCCTTCCGTTCTAATATCAAAACGTTTCTTCTTTCCTACGCCGAGGGCCCTCTGCCCCTCAAGATTTCCTCGCCATCCTTCATCCAGAGGTGGCGGGTTCGACTCCGATTGGATGACCAGGATGAGGATGTCTTCATCGCGCTCAATATCGTCGAGGAGCAAGT
TAAGCGCTCAGATTCTGTCTATTGCAACCACTGCAGTGTTGTGGCAGGATGGCATGAGAACCCTGTTTGCAAGTCGCGGTACCATTTCATCATTCAGGCGGATAACGCGAAGAACTGTACCTACTGTGGGGCTTTTGTTGGGTCCTCTGCGTCTTCAAGATGCAATGCATGTGACTTTGAGATAAGCCGGGACACTGATT
TGGAAGATGAGACTAGACTCATTTTGGAAGATGCAAGTCACCTGCTACATGGTATAATACATGTAAATGGGTTTGGCCACTTGCTTCGCGTGAATGGACGGGAAGGCGGTTCACAGTTTCTTTCTGGCTGTGATATTATGGGCTTGTGGGACAGGATATGCATCATGATGAAAGCCAGGCTTCTCTATACTGGAACTTTC
ATGCTGTAAGGTTTCTGTGGGAGACAGTTACTTTTGAAGATCCAAATATTTTGGGCATCTATCTGTCTATCTGTCCACCTGAGCTTTAAGACTTTCCTCAAGATTCTTGTCTTGAAGGAGTTGCATGCTAGGAGACGGCAAAATGAGAGATTTTTATTCTTGCTTGAAGAATATATGTTTATCAATTTCCCTGTGATAAG
CTTTCTATTCCAGAAAGGAGCACTGTTAATTCCTGGGAGATTTGTTGATGCGATTTCCAAAAGTAACGAGGGGTATTCTTTCTATTGACCCAAAAATCTTGAAATACTATTTTCTGAAGAAAAATTTGGAAATACAAAAAGATGAGATGTTTGTCACGATGAAAACTTGATAAAACGTCCAAGCGACCTGTCTCAGTGTA
CAAAAAGTTCAAAGCCCATTTCTGTTTTAAAAGGAACACGTACATTTTACCAACCAGCATCAATTAGCATCTCTGCCCTGCTGGATTTTGAGTATGCTATCTGTTCAAGAATAAACTCATTATTGGTAGTATCCGAATCAATAATTGTACATACCAAGCTCTGAGAAACTGTCATGAGAGTTGGAATACTTGGGTTCTTG
GATTACTTGTAGGAATGCCCAAAAGCTTGTTCGTCTTCTGTAATCATAGCAAGGTTCCAAATTGTGCATTTTGCCAGTATGGTGAAACGGTT

>TRINITY_DN98987_c0_g1_i4 from sample A4 / Example unspliced isoform:

TGAAAGGCGACCCGCCCCAAACCAAAGAACACAAGTCGAAGAAGCAGCAGCAGCGGCGGCAGAGAAAGAACCAGAAACAGCACAGGGAGAACCAGGCGAAGAAACATCAGCTGCCCCCGAGCGGTATGGTGGTCAGTAGGCCCTTCAAACGAGTAAAAAGAGTCGTGGCAGACTACTATTCTTTCCATAGCTTCGGCACC
AGCGCTTGTCCCGCTGGGGATCGAACCTTTGTCGGGCCCTTCCGTTCTAATATCAAAACGTTTCTTCTTTCCTACGCCGAGGGCCCTCTGCCCCTCAAGATTTCCTCGCCATCCTTCATCCAGAGGTGGCGGGTTCGACTCCGATTGGATGACCAGGATGAGGATGTCTTCATCGCGCTCAATATCGTCGAGGAGCAAGT
TAAGCGCTCAGATTCTGTCTATTGCAACCACTGCAGTGTTGTGGgtatgtgatgttttatgtttattttcacagatctgtattgggtttaagtgtttgggggctgaaatggggattggtttgtgtttttttagCAGGATGGCATGAGAACCCTGTTTGCAAGTCGCGGTACCATTTCATCATTCAGGCGGATAACGCGAA
GAACTGTACCTACTGTGGGGCTTTTGTTGGGTCCTCTGCGTCTTCAAGATGCAATGCATGTGACTTTGAGATAAGCCGGGACACTGATTTGGAAGATGAGACTAGACTCATTTTGGAAGATGCAAGTCACCTGCTACATGGTATAATACATGTAAATGGGTTTGGCCACTTGCTTCGCGTGAATGGACGGGAAGGCGGTT
CACAGTTTCTTTCTGGCTGTGATATTATGGGCTTGTGGGACAGGATATGCATCATGATGAAAGCCAGAAAAATTAGCGTCATGGACGTGTCAAAGAAATACGGACTAGACTATCGACTTTTGCACGCTGTGCAAAGAGGACACCCATGGTACGGTAATTGGGGCTACGAGTTTGGGAACGGTAGTTTTGGAATTACACAT
GAGTCATACAAGAGTTCCCTTCAATGGCTATCAAAGCTTCCTTTGGACTCGGTTCTTTCAGACGTGGGCAGATGTGACAGTCAAGTGAAGCAAATTGTGTCATTTTACAATTCCTTCTCTGAGAAGCCTCTTTTGACAGTCCAAGATTTAATATGTTTTATTATGGCATTGTTGCACAAATTCCACGATCAAATTGAGGC
GAGAAAATGTTCAGGGAACATCATGATTACCATGGACAAAGCTAATATCAATACAGAATCGGCTGAACCAAAATGTGTACCCAAAGTGGTAGGTGAGGTTACAGAAGCCATGCTCAAGGTTCTACGAGTAGCAAATAGATCGATGTGGATAACATGGCAAGATTTAAGAGGAGCAACGTGTCATAGAAGGGATCCTGAGA
TTTTGAACTATGCCCTGACAGGTCTAGAAGGAAAAACCATTGGAAAGGGGGTTGTGCAGTGTCGATGCAATTCCACCGCACGAACACTTGAATACAGGCTGAAAGACAGAGAGAGCATAGCTGCAGAATCAACCTACACGAGTGCTATTCATCCAAAACAGCCCATGAAAGAGCATGTTTTGGGAGACCTGAAGACACTC
TATCATGCTCTCTTCGATCCTCTGCCTACTGCTGACTTACAGCGTTGTAGATTAAGAAAGCAATGTGTTCATGCCTCAAGAAAGCTGTTAGATTGTAAACAGTTTATTAAAGATTACGAGGCAAATCATCCCATAGTGACAACAGACAGTGACAGCATAAGAGTGTTTGTTGTGGCAGAGATTTTAGAAGAAGAAACAAA
CTACCATAGACCGCCACCTGAATTACTTATCATGCCTAAAAATGCAACTGTAGCTGATCTGAAACGAGAAGCTGCTCAAGCTTTCAAGGATGTTTATATTTGTTTCGAAAGGTTTCAAGTGGAAAATATACAAGAGCTTAAAAATATTAAAGATTCAACGAACTTGAGGCTGCTGATAGGGCCAGGTGGCGTTGTCACTA
TTCAAGGTCGTTGCGGTGATGATATGTCCAAATACAGAGTAGAACGAGGCACACAAATATGGACCGTTGATTGCCCTTGTGGCACGAGGGTGGATGATGGGGAAAGGATGATCGCTTGCGATTATTGTGAGGTTTGGCAACACACAAGGTGTGTTAATATTTCAGATACTTCAGAGGTACCTCCAGTATTCACGTGTGAA
AACTGTGGCGACAACGCTGAAGATAGTGACGATTTTGAATATAGTGCTTTTGATGATGGCTCATCTGTCTCGAGCTTTTACTGAGCTCCATTTTTTGTGCCTGTAGTGAGGCTGTAAATTCCAAAGATTCTCTGAGATTTTAATTAGACTATTTTTGGCCGAAAAGAATAGCCTTGTTCCAAATTTTATCTTTGTCAAGA
TAGAGCATTACTCTGGGC

Intron 2 GTTTGTTACA ... GTACATACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	13.95	111	17	19
A2	19.25	107	34	17
A3	16	105	20	20
A4	20.19	85	24	19
A5	14.71	29	4	6
A6	16.9	118	18	30
A7	13.49	234	30	43
A8	11.48	189	24	25
A9	18.31	174	43	35
A10	14.71	203	41	29

>TRINITY_DN105950_c0_g1_i4 from sample A3 / Example spliced isoform

GCTATATATTGAAAGGCGACCCGCCCCAAACCAAAGAACACAAGTCGAAGAAGCAGCAGCAGCGGCGGCAGAGAAAGAACCAGAAACAGCACAGGGAGAACCAGGCGAAGAAACATCAGCTGCCCCCGAGCGGTATGGTGGTCAGTAGGCCCTTCAAACGAGTAAAAAGAGTCGTGGCAGACTACTATTCTTTCCATAGC
TTCGGCACCAGCGCTTGTCCCGCTGGGGATCGAACCTTTGTCGGGCCCTTCCGTTCTAATATCAAAACGTTTCTTCTTTCCTACGCCGAGGGCCCTCTGCCCCTCAAGATTTCTTCGCCATCCTTCATCCAGAGGTGGCGGGTTCGACTCCGATTGGATGACCAGGATGAGGATGTCTTCATCGCGCTCAATATCGTCGA
GGAGCAAGTTAAGCGCTCAGATTCTGTCTATTGCAACCACTGCAGTGTTGTGGCAGGATGGCATGAGAACCCTGTTTGCAAGTCGCGGTACCATTTCATCATTCAGGCGGATAACGCGAAGAACTGTACCTACTGTGGGGCTTTTGTTGGGTCCTCTGCGTCTTCAAGATGCAATGCATGTGACTTTGAGATAAGCCGGG
ACACTGATTTGGAAGATGAGACTAGACTCATTTTGGAAGATGCAAGTCACCTGCTACATGGTATAATACATGTAAATGGGTTTGGCCACTTGCTTCGCGTGAATGGACGGGAAGGCGGTTCACAGTTTCTTTCTGGCTGTGATATTATGGGCTTGTGGGACAGGATATGCATCATGATGAAAGCCAGAAAAATTAGCGTC
ATGGACGTGTCAAAGAAATACGGACTAGACTATCGACTTTTGCACGCTGTGCAAAGAGGACACCCATGGTACGGTAATTGGGGCTACGAGTTTGGGAACGGTAGTTTTGGAATTACACATGAGTCATACAAGAGTTCCCTTCAATGGCTATCAAAGCTTCCTTTGGACTCGGTTCTTTCAGACGTGGGCAGATGTGACAG
TCAAGTGAAGCAAATTGTGTCATTTTACAATTCCTTCTCTGAGAAGCCTCTTTTGACAGTCCAAGATTTAATATGTTTTATTATGGCATTGTTGCACAAATTCCACGATCAAATTGAGGCGAGAAAATGTTCAGGGAACATCATGATTACCATGGACAAAGCTAATATCAATACAGAATCGGCTGAACCAAAATGTGTAC
CCAAAGTGGTAGGTGAGGTTACAGAAGCCATGCTCAAGGTTCTACGAGTAGCAAATAGATCGATGTGGATAACATGGCAAGATTTAAGAGGAGCAACGTGTCATAGAAGGGATCCTGAGATTTTGAACTATGCCCTGACAGGTCTAGAAGGAAAAACCATTGGAAAGGGGGTTGTGCAGTGTCGATGCAATTCCACCGCA
CGAACACTTGAATACAGGCTGAAAGACAGAGAGAGCATAGCTGCAGAATCAACCTACACGAGTGCTATTCATCCAAAACAGCCCATGAAAGAGCATGTTTTGGGAGACCTGAAGACACTCTATCATGCTCTCTTCGATCCTCTGCCTACTGCTGACTTACAGCGTTGTAGATTAAGAAAGCAATGTGTTCATGCCTCAAG
AAAGCTGTTAGATTGTAAACAGTTTATTAAAGATTACGAGGCAAATCATCCCATAGTGACAACAGACAGTGACAGCATAAGAGTGTTTGTTGTGGCAGAGATTTTAGAAGAAGAAACAAACTACCATAGACCGCCACCTGAATTACTTATCATGCCTAAAAATGCAACTGTAGCTGATCTGAAACGAGAAGCTGCTCAAG
CTTTCAAGGATGTTTATATTTGTTTCGAAAGGTTTCAAGTGGAAAATATACAAGAGCTTAAAAATATTAAAGATTCAACGAACTTGAGGCTGCTGATAGGGCCAGGTGGCGTTGTCACTATTCAAGGTCGTTGCGGTGGTGATATGTCCAAATACAGAGTAGAACGAGGCACACAAATATGGACCGTTGATTGCCCTTGT
GGCACGAGGGTGGATGATGGGGAAAGGATGATCGCTTGCGATTATTGTGAGGTTTGGCAACACACAAGGTGTGTTAATATTTCAGATACTTCAGAGGTACCTCCAGTATTCACGTGTGAAAACTGTGGCGACAACGCTGAAGATAGTGACGATTTTGAATATAGTGCTTTTGATGATGGCTCATCTGTCTCGAGCTTTTA
CTGAGCTCCATTTTTTGTGCCTGTAGTGAGGCTGTAAATTCCAAAGATTCTCTGAGATTTTAATTAGACTATTTTTGGCCGAAAAGAATAGCCTTGTTCCAAATTTTATCTTTGTCAAGATAGAGCATTACTCTGGGTTAAAATATGATTACTGCC

>TRINITY_DN105950_c0_g1_i1 from sample A3 / Example unspliced isoform:

GCTATATATTGAAAGGCGACCCGCCCCAAACCAAAGAACACAAGTCGAAGAAGCAGCAGCAGCGGCGGCAGAGAAAGAACCAGAAACAGCACAGGGAGAACCAGGCGAAGAAACATCAGCTGCCCCCGAGCGGTATGGTGGTCAGTAGGCCCTTCAAACGAGTAAAAAGAGTCGTGGCAGACTACTATTCTTTCCATAGC
TTCGGCACCAGCGCTTGTCCCGCTGGGGATCGAACCTTTGTCGGGCCCTTCCGTTCTAATATCAAAACGTTTCTTCTTTCCTACGCCGAGGGCCCTCTGCCCCTCAAGATTTCTTCGCCATCCTTCATCCAGAGGTGGCGGGTTCGACTCCGATTGGATGACCAGGATGAGGATGTCTTCATCGCGCTCAATATCGTCGA
GGAGCAAGTTAAGCGCTCAGATTCTGTCTATTGCAACCACTGCAGTGTTGTGGCAGGATGGCATGAGAACCCTGTTTGCAAGTCGCGGTACCATTTCATCATTCAGGCGGATAACGCGAAGAACTGTACCTACTGTGGGGCTTTTGTTGGGTCCTCTGCGTCTTCAAGATGCAATGCATGTGACTTTGAGATAAGCCGGG
ACACTGATTTGGAAGATGAGACTAGACTCATTTTGGAAGATGCAAGTCACCTGCTACATGGTATAATACATGTAAATGGGTTTGGCCACTTGCTTCGCGTGAATGGACGGGAAGGCGGTTCACAGTTTCTTTCTGGCTGTGATATTATGGGCTTGTGGGACAGGATATGCATCATGATGAAAGCCAGAAAAATTAGCGTC
ATGGACGTGTCAAAGAAATACGGACTAGACTATCGACTTTTGCACGCTGTGCAAAGAGGACACCCATGGTACGGTAATTGGGGCTACGAGTTTGGGAACGGTAGTTTTGGAATTACACATGAGTCATACAAGAGTTCCCTTCAATGGCTATCAAAGCTTCCTTTGGACTCGGTTCTTTCAGACGTGGGCAGATGTGACAG
TCAAGTGAAGCAAATTGTGTCATTTTACAATTCCTTCTCTGAGAAGCCTCTTTTGACAGTCCAAGATTTAATATGTTTTATTATGGCATTGTTGCACAAATTCCACGATCAAATTGAGGCGAGAAAATGTTCAGGGAACATCATGATTACCATGGACAAAGCTAATATCAATACAGAATCGGCTGAACCAAAATGTGTAC
CCAAAGTGGTAGGTGAGGTTACAGAAGCCATGCTCAAGGTTCTACGAGTAGCAAATAGATCGATGTGGATAACATGGCAAGATTTAAGAGGAGCAACGTGTCATAGAAGGGATCCTGAGATTTTGAACTATGCCCTGACAGGTCTAGAAGGAAAAACCATTGGAAAGGGGGTTGTGCAGTGTCGATGCAATTCCACCGCA
CGAACACTTGAATACAGgtttgttacatcccactcttttggtcaacttattgtttttccttgtcagaaatataattgatcaagtctttgtaggactgaaatttgattacagttaaattccaatctaattacagaaatatgatgctgactattaatgtacatacagGCTGAAAGACAGAGAGAGCATAGCTGCAGAATCAA
CCTACACGAGTGCTATTCATCCAAAACAGCCCATGAAAGAGCATGTTTTGGGAGACCTGAAGACACTCTATCATGCTCTCTTCGATCCTCTGCCTACTGCTGACTTACAGCGTTGTAGATTAAGAAAGCAATGTGTTCATGCCTCAAGAAAGCTGTTAGATTGTAAACAGTTTATTAAAGATTACGAGGCAAATCATCCC
ATAGTGACAACAGACAGTGACAGCATAAGAGTGTTTGTTGTGGCAGAGATTTTAGAAGAAGAAACAAACTACCATAGACCGCCACCTGAATTACTTATCATGCCTAAAAATGCAACTGTAGCTGATCTGAAACGAGAAGCTGCTCAAGCTTTCAAGGATGTTTATATTTGTTTCGAAAGGTTTCAAGTGGAAAATATACA
AGAGCTTAAAAATATTAAAGATTCAACGAACTTGAGGCTGCTGATAGGGCCAGGTGGCGTTGTCACTATTCAAGGTCGTTGCGGTGGTGATATGTCCAAATACAGAGTAGAACGAGGCACACAAATATGGACCGTTGATTGCCCTTGTGGCACGAGGGTGGATGATGGGGAAAGGATGATCGCTTGCGATTATTGTGAGG
TTTGGCAACACACAAGGTGTGTTAATATTTCAGATACTTCAGAGGTACCTCCAGTATTCACGTGTGAAAACTGTGGCGACAACGCTGAAGATAGTGACGATTTTGAATATAGTGCTTTTGATGATGGCTCATCTGTCTCGAGCTTTTACTGAGCTCCATTTTTTGTGCCTGTAGTGAGGCTGTAAATTCCAAAGATTCTC
TGAGATTTTAATTAGACTATTTTTGGCCGAAAAGAATAGCCTTGTTCCAAATTTTATCTTTGTCAAGATAGAGCATTACTCTGGGTTAAAATATGATTACTGCC

Intron 3 GTAAACATCA ... TTCTTATTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	33.33	26	8	13
A2	36	16	4.8	9
A3	25	21	12.4	7
A4	8.11	34	19	3
A5	0	11	9.8	0
A6	19.74	61	16.2	15
A7	16.46	66	23.6	13
A8	17.39	57	26	12
A9	26.39	53	18.6	19
A10	26.39	53	23.8	19

>TRINITY_DN38311_c0_g1_i1 from sample A6 / Example spliced isoform

GCTATATATTGAAAGGCGACCCGCCCCAAACCAAAGAACACAAGTCGAAGAAGCAGCAGCAGCGGCGGCAGAGAAAGAACCAGAAACAGCACAGGGAGAACCAGGCGAAGAAACATCAGCTGCCCCCGAGCGGTATGGTGGTCAGTAGGCCCTTCAAACGAGTAAAAAGAGTCGTGGCAGACTACTATTCTTTCCATAGC
TTCGGCACCAGCGCTTGTCCCGCTGGGGATCGAACCTTTGTCGGGCCCTTCCGTTCTAATATCAAAACGTTTCTTCTTTCCTACGCCGAGGGCCCTCTGCCCCTCAAGATTTCCTCGCCATCCTTCATCCAGAGGTGGCGGGTTCGACTCCGATTGGATGACCAGGATGAGGATGTCTTCATCGCGCTCAATATCGTCGA
GGAGCAAGTTAAGCGCTCAGATTCTGTCTATTGCAACCACTGCAGTGTTGTGGCAGGATGGCATGAGAACCCTGTTTGCAAGTCGCGGTACCATTTCATCATACAGGCGGATAACGCGAAGAACTGTACCTACTGTGGGGCTTTTGTTGGGTCCTCTGCGTCTTCAAGATGCAATGCATGTGACTTTGAGATAAGCCGGG
ACACTGATTTGGAAGATGAGACTAGACTCATTTTGGAAGATGCAAGTCACCTGCTACATGGTATAATACATGTAAATGGGTTTGGCCACTTGCTTCGCGTGAATGGACGGGAAGGCGGTTCACAGTTTCTTTCTGGCTGTGATATTATGGGCTTGTGGGACAGGATATGCATCATGATGAAAGCCAGGCTTCTCTATACT
GGAACTTTCATGCTGTAAGGTTTCTGTGGGAGACAGTTACTTTTGAAGATCCAAATATTTTGGGCATCTATCTGTCTATCTGTCCACCTGAGCTTTAAGACTTTCCTCAAGATTCTTGTCTTGAAAGAGTTGCATGCTAGGAGACGGCAAAATGAGAGATTTTTATTCTTGCTTGAAGAATATATGTTTATCAATTTCCC
TGTGATAAGCTTTCTATTCCAGAAAGGAGCACTGTTAATTCCTGGGAGATTTGTTGATGCGATTTCCAAAAGTAACGAGGGGTATTCTTTCTATTGACCCAAAAATCTTGAAATACTATTTTCTGAAGAAAAATTTGGAAATACAAAAAGATGAGATGTTTGTCACGATGAAAACTTGATAAAACGTCCAAGCGACCTGT
CTCAGTGTACAAAAAGTTCAAAGCCCATTTCTGTTTTAAAAGGAACACGTACATTTTACCAACCAGCATCAATTAGCATCTCTGCCCTGCTGGATTTTGAGTATGCTATCTGTTCAAGAATAAACTCATTATTGGTAGTATCCGAATCAATAATTGTACATACCAAGCTCTGAGAAACTGTCATGAGAGTTGGAATACTT
GGGTTCTTGGATTACTTGTAGGAATGCCCAAAAGCTTGTTCGTCTTCTGTAATCATAGCAAGGTTCCAAATTGTGCATTTTGCCAGTATGGTGAAACGGTTCCATTAAATGAAAAAAAAAAAATTCTTAGTGAGTG

>TRINITY_DN38311_c0_g1_i2 from sample A6 / Example unspliced isoform:

GCTATATATTGAAAGGCGACCCGCCCCAAACCAAAGAACACAAGTCGAAGAAGCAGCAGCAGCGGCGGCAGAGAAAGAACCAGAAACAGCACAGGGAGAACCAGGCGAAGAAACATCAGCTGCCCCCGAGCGGTATGGTGGTCAGTAGGCCCTTCAAACGAGTAAAAAGAGTCGTGGCAGACTACTATTCTTTCCATAGC
TTCGGCACCAGCGCTTGTCCCGCTGGGGATCGAACCTTTGTCGGGCCCTTCCGTTCTAATATCAAAACGTTTCTTCTTTCCTACGCCGAGGGCCCTCTGCCCCTCAAGATTTCCTCGCCATCCTTCATCCAGAGGTGGCGGGTTCGACTCCGATTGGATGACCAGGATGAGGATGTCTTCATCGCGCTCAATATCGTCGA
GGAGCAAGTTAAGCGCTCAGATTCTGTCTATTGCAACCACTGCAGTGTTGTGGCAGGATGGCATGAGAACCCTGTTTGCAAGTCGCGGTACCATTTCATCATACAGGCGGATAACGCGAAGAACTGTACCTACTGTGGGGCTTTTGTTGGGTCCTCTGCGTCTTCAAGATGCAATGCATGTGACTTTGAGATAAGCCGGG
ACACTGATTTGGAAGATGAGACTAGACTCATTTTGGAAGATGCAAGTCACCTGCTACATGGTATAATACATGTAAATGGGTTTGGCCACTTGCTTCGCGTGAATGGACGGGAAGGCGGTTCACAGTTTCTTTCTGGCTGTGATATTATGGGCTTGTGGGACAGGATATGCATCATGATGAAAGCCAGgtaaacatcagta
tgcacgctttgaatacaattgaagttattgttttgtcgtacatgtggtataatttctacgaaaatacttcaagaaattaaatcagtttaagatggatttgcatggctggttatgcggagctataatttagtaggttgctttgaagggattggtactgaatggcaggattcatcatgacatggtcttttcttattagGCTT
CTCTATACTGGAACTTTCATGCTGTAAGGTTTCTGTGGGAGACAGTTACTTTTGAAGATCCAAATATTTTGGGCATCTATCTGTCTATCTGTCCACCTGAGCTTTAAGACTTTCCTCAAGATTCTTGTCTTGAAAGAGTTGCATGCTAGGAGACGGCAAAATGAGAGATTTTTATTCTTGCTTGAAGAATATATGTTTAT
CAATTTCCCTGTGATAAGCTTTCTATTCCAGAAAGGAGCACTGTTAATTCCTGGGAGATTTGTTGATGCGATTTCCAAAAGTAACGAGGGGTATTCTTTCTATTGACCCAAAAATCTTGAAATACTATTTTCTGAAGAAAAATTTGGAAATACAAAAAGATGAGATGTTTGTCACGATGAAAACTTGATAAAACGTCCAA
GCGACCTGTCTCAGTGTACAAAAAGTTCAAAGCCCATTTCTGTTTTAAAAGGAACACGTACATTTTACCAACCAGCATCAATTAGCATCTCTGCCCTGCTGGATTTTGAGTATGCTATCTGTTCAAGAATAAACTCATTATTGGTAGTATCCGAATCAATAATTGTACATACCAAGCTCTGAGAAACTGTCATGAGAGTT
GGAATACTTGGGTTCTTGGATTACTTGTAGGAATGCCCAAAAGCTTGTTCGTCTTCTGTAATCATAGCAAGGTTCCAAATTGTGCATTTTGCCAGTATGGTGAAACGGTTCCATTAAATGAAAAAAAAAAAATTCTTAGTGAGTG

Intron 4 GTGAGGTTAC ... GCCCTGACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	51.52	72	61	92
A2	65.81	40	40	114
A3	58.91	53	55	97
A4	75.44	24	51.5	96
A5	63.86	15	31	22
A6	66.17	45	54	122
A7	66.3	77	108	195
A8	58.53	90	79	175
A9	69.19	59	87	178
A10	71.49	67	138	198

>TRINITY_DN45344_c0_g1_i2 from sample A8 / Example spliced isoform

AAAGGCGACCCGCCCCAAACCAAAGAACACAAGTCGAAGAAGCAGCAGCAGCGGCGGCAGAGAAAGAACCAGAAACAGCACAGGGAGAACCAGGCGAAGAAACATCAGCTGCCCCCGAGCGGTATGGTGGTCAGTAGGCCCTTCAAACGAGTAAAAAGAGTCGTGGCAGACTACTATTCTTTCCATAGCTTCGGCACCAG
CGCTTGTCCCGCTGGGGATCGAACCTTTGTCGGGCCCTTCCGTTCTAATATCAAAACGTTTCTTCTTTCCTACGCCGAGGGCCCTCTGCCCCTCAAGATTTCCTCGCCATCCTTCATCCAGAGGTGGCGGGTTCGACTCCGATTGGATGACCAGGATGAGGATGTCTTCATCGCGCTCAATATCGTCGAGGAGCAAGTTA
AGCGCTCAGATTCTGTCTATTGCAACCACTGCAGTGTTGTGGCAGGATGGCATGAGAACCCTGTTTGCAAGTCGCGGTACCATTTCATCATACAGGCGGATAACGCGAAGAACTGTACCTACTGTGGGGCTTTTGTTGGGTCCTCTGCGTCTTCAAGATGCAATGCATGTGACTTTGAGATAAGCCGGGACACTGATTTG
GAAGATGAGACTAGACTCATTTTGGAAGATGCAAGTCACCTGCTACATGGTATAATACATGTAAATGGGTTTGGCCACTTGCTTCGCGTGAATGGACGGGAAGGCGGTTCACAGTTTCTTTCTGGCTGTGATATTATGGGCTTGTGGGACAGGATATGCATCATGATGAAAGCCAGAAAAATTAGCGTCATGGACGTGTC
AAAGAAATACGGACTAGACTATCGACTTTTGCACGCTGTGCAAAGAGGACACCCATGGTACGGTAATTGGGGCTACGAGTTTGGGAACGGTAGTTTTGGAATTACACATGAGTCATACAAGAGTTCCCTTCAATGGCTATCAAAGCTTCCTTTGGACTCGGTTCTTTCAGACGTGGGCAGATGTGACAGTCAAGTGAAGC
AAATTGTGTCATTTTACAATTCCTTCTCTGAGAAGCCTCTTTTGACAGTCCAAGATTTAATATGTTTTATTATGGCATTGTTGCACAAATTCCACGATCAAATTGAGGCGAGAAAATGTTCAGGGAACATCATGATTACCATGGACAAAGCTAATATCAATACAGAATCGGCTGAACCAAAATGTGTACCCAAAGTGGTA
GGTCTAGAAGGAAAAACCATTGGAAAGGGGGTTGTGCAGTGTCGATGCAATTCCACCGCACGAACACTTGAATACAGGCTGAAAGACAGAGAGAGCATAGCTGCAGAATCAACCTACACGAGTGCTATTCATCCAAAACAGCCCATGAAAGAGCATGTTTTGGGAGACCTGAAGACACTCTATCATGCTCTCTTCGATCC
TCTGCCTACTGCTGACTTACAGCGTTGTAGATTAAGAAAGCAATGTGTTCATGCCTCAAGAAAGCTGTTAGATTGTAAACAGTTTATTAAAGATTACGAGGCAAATCATCCCATAGTGACAACAGACAGTGACAGCATAAGAGTGTTTGTTGTGGCAGAGATTTTAGAAGAAGAAACAAACTACCATAGACCGCCACCTG
AATTACTTATCATGCCTAAAAATGCAACTGTAGCTGATCTGAAACGAGAAGCTGCTCAAGCTTTCAAGGATGTTTATATTTGTTTCGAAAGGTTTCAAGTGGAAAATATACAAGAGCTTAAAAATATTAAAGATTCAACGAACTTGAGGCTGCTGATAGGGCCAGGTGGCGTTGTCACTATTCAAGGTCGTTGCGGTGAT
GATATGTCCAAATACAGAGTAGAACGAGGCACACAAATATGGACCGTTGATTGCCCTTGTGGCACGAGGGTGGATGATGGGGAAAGGATGATCGCTTGCGATTATTGTGAGGTTTGGCAACACACAAGGTGTGTTAATATTTCAGATACTTCAGAGGTACCTCCAGTATTCACGTGTGAAAACTGTGGCGACAACGCTGA
AGATAGTGACGATTTTGAATATAGTGCTTTTGATGATGGCTCATCTGTCTCGAGCTTTTACTGAGCTCCATTTTTTGTGCCTGTAGTGAGGCTGTAAATTCCAAAGATTCTCTGAGATTTTAATTAGACTATTTTTGGCCGAAAAGAATAGCCTTGTTCCAAATTTTATCTTTGTCAAGATAGAGCATTACTCTGGGTTA
AAATATGATTACTGTCT

>TRINITY_DN45344_c0_g1_i1 from sample A8 / Example unspliced isoform:

AAAGGCGACCCGCCCCAAACCAAAGAACACAAGTCGAAGAAGCAGCAGCAGCGGCGGCAGAGAAAGAACCAGAAACAGCACAGGGAGAACCAGGCGAAGAAACATCAGCTGCCCCCGAGCGGTATGGTGGTCAGTAGGCCCTTCAAACGAGTAAAAAGAGTCGTGGCAGACTACTATTCTTTCCATAGCTTCGGCACCAG
CGCTTGTCCCGCTGGGGATCGAACCTTTGTCGGGCCCTTCCGTTCTAATATCAAAACGTTTCTTCTTTCCTACGCCGAGGGCCCTCTGCCCCTCAAGATTTCCTCGCCATCCTTCATCCAGAGGTGGCGGGTTCGACTCCGATTGGATGACCAGGATGAGGATGTCTTCATCGCGCTCAATATCGTCGAGGAGCAAGTTA
AGCGCTCAGATTCTGTCTATTGCAACCACTGCAGTGTTGTGGCAGGATGGCATGAGAACCCTGTTTGCAAGTCGCGGTACCATTTCATCATACAGGCGGATAACGCGAAGAACTGTACCTACTGTGGGGCTTTTGTTGGGTCCTCTGCGTCTTCAAGATGCAATGCATGTGACTTTGAGATAAGCCGGGACACTGATTTG
GAAGATGAGACTAGACTCATTTTGGAAGATGCAAGTCACCTGCTACATGGTATAATACATGTAAATGGGTTTGGCCACTTGCTTCGCGTGAATGGACGGGAAGGCGGTTCACAGTTTCTTTCTGGCTGTGATATTATGGGCTTGTGGGACAGGATATGCATCATGATGAAAGCCAGAAAAATTAGCGTCATGGACGTGTC
AAAGAAATACGGACTAGACTATCGACTTTTGCACGCTGTGCAAAGAGGACACCCATGGTACGGTAATTGGGGCTACGAGTTTGGGAACGGTAGTTTTGGAATTACACATGAGTCATACAAGAGTTCCCTTCAATGGCTATCAAAGCTTCCTTTGGACTCGGTTCTTTCAGACGTGGGCAGATGTGACAGTCAAGTGAAGC
AAATTGTGTCATTTTACAATTCCTTCTCTGAGAAGCCTCTTTTGACAGTCCAAGATTTAATATGTTTTATTATGGCATTGTTGCACAAATTCCACGATCAAATTGAGGCGAGAAAATGTTCAGGGAACATCATGATTACCATGGACAAAGCTAATATCAATACAGAATCGGCTGAACCAAAATGTGTACCCAAAGTGGTA
GgtgaggttacagaagccatgctcaaggttctacgagtagcaaatagatcgatgtggataacatggcaagatttaagaggagcaacgtgtcatagaagggatcctgagattttgaactatgccctgacagGTCTAGAAGGAAAAACCATTGGAAAGGGGGTTGTGCAGTGTCGATGCAATTCCACCGCACGAACACTTGA
ATACAGGCTGAAAGACAGAGAGAGCATAGCTGCAGAATCAACCTACACGAGTGCTATTCATCCAAAACAGCCCATGAAAGAGCATGTTTTGGGAGACCTGAAGACACTCTATCATGCTCTCTTCGATCCTCTGCCTACTGCTGACTTACAGCGTTGTAGATTAAGAAAGCAATGTGTTCATGCCTCAAGAAAGCTGTTAG
ATTGTAAACAGTTTATTAAAGATTACGAGGCAAATCATCCCATAGTGACAACAGACAGTGACAGCATAAGAGTGTTTGTTGTGGCAGAGATTTTAGAAGAAGAAACAAACTACCATAGACCGCCACCTGAATTACTTATCATGCCTAAAAATGCAACTGTAGCTGATCTGAAACGAGAAGCTGCTCAAGCTTTCAAGGAT
GTTTATATTTGTTTCGAAAGGTTTCAAGTGGAAAATATACAAGAGCTTAAAAATATTAAAGATTCAACGAACTTGAGGCTGCTGATAGGGCCAGGTGGCGTTGTCACTATTCAAGGTCGTTGCGGTGATGATATGTCCAAATACAGAGTAGAACGAGGCACACAAATATGGACCGTTGATTGCCCTTGTGGCACGAGGGT
GGATGATGGGGAAAGGATGATCGCTTGCGATTATTGTGAGGTTTGGCAACACACAAGGTGTGTTAATATTTCAGATACTTCAGAGGTACCTCCAGTATTCACGTGTGAAAACTGTGGCGACAACGCTGAAGATAGTGACGATTTTGAATATAGTGCTTTTGATGATGGCTCATCTGTCTCGAGCTTTTACTGAGCTCCAT
TTTTTGTGCCTGTAGTGAGGCTGTAAATTCCAAAGATTCTCTGAGATTTTAATTAGACTATTTTTGGCCGAAAAGAATAGCCTTGTTCCAAATTTTATCTTTGTCAAGATAGAGCATTACTCTGGGTTAAAATATGATTACTGTCT