NA ----> NA

Intron 1 GTATCACATT ... GTGCACACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	51.99	41.5	35	10.5
A2	43.44	40	25	10.5
A3	41.78	27.5	18	5
A4	41.11	12.5	6	0.5
A5	50.42	14	10	2.5
A6	34.6	138.5	52	33
A7	38.67	175.5	71	37
A8	35.8	211.5	75	51.5
A9	38.52	198	98	38
A10	35.81	154	58	34

>TRINITY_DN43159_c1_g3_i5 from sample A7 / Example spliced isoform

CCCCAATATGCAGTCCAGACTTCCTCGATCTCTTCCTTCTCGACTGCTCTTCCTGCCTTTCTGAGTTATGCCACATAGCTAATAATTCCTTGATCTCTACATCCTCACCTGCTCCTCCTACTTCCCTAACTAACAGTTATGTGGCATAGCTAAGAATAATCCTTGTAACTGGATCGATGGGACGAATGGTGACTGAGAAT
ATCTCGTGCCCTAGCACCGACACGTTGACACAACAAATAGAACCCACAATAAAAAAGCATTGAGAACCCACGGTGATAGAGCGTTGAAGTGCTGAAGAGGACCAATTTATTCAAATCTGCATCAAGGCTATTCAGATGTAGTTCAAATGCTGCTCAGAAAAGCATACAAGGATAACCACCTCAGACATCTGTGCCAATTA
TCATCTTTCAGGTTGATAGACTATTATGCAAGCTTATTGCACTTGGATATTCCCCATAAGTGGCAGTACAAGTCGTGGAGTCACAAACATTATTTGGGTCCGAGGATATGACAATTAAAGGAGAATCGGTTGTTCATGCACTAGTGGCAAATTAATCACATCTCTTTGGAGAAGAATTTAACTGTACTGTTAAGGCACTC
CTTACATAAGGTCACCGGTTCGAAACTCCATGGGTGCAAGCCTTACAAAAAAAAGGTTAGGGTTTTGGATCCTCTACAATCTTCTTGGAAAACCATGTGTGGCTAGCTCCACTTATCAGAAATGCAACTTTCTCATATGAACTGTATTTTGAAATTTTCAGTCTTCTTTAGTGCATTGGAAAACTCCCAAGAATACCAGT
AGCACATAAATGGGTGACGCCCATTTTGTCAAGGTTTTCAGCCAAAACACACTGCTCAATTCCTAAAACAAGCGATTTTCAGTTTTGACCCCAAAATGCAGAATCAGGATCTGTCCTGAAATGGACCCTGATAAGGCCATAACTTTGATTATTAATTTATTTCTATTTCATAAAGTATCAAGAAGGAAACAAATATATAT
TGATCTATTTGGGGAACACGGGAATTGGAATGGGCCACAAATGGTGAAAAGATAAACCAAATAGAGGAAAGCTCAAGACAAAAAGGGATGGTGCATTAAATGATGATAGATGGGCATGTTCAAACTTGAGAACAGCTGTATAGAGAGATGCTGCCACCTTCAGTGCAATAAACTAACATGAAGCTGTACTTTATCCAAGA
GGCTCATGGAAAGAAATGCAACTATTTCAACTTGAGACTGCCATTATATCAAGAATAATAATATTTTATGCCAATGGTGGGCTAGGCGACCACGAAGATCATAGGCATACATACCTTACAAAAGGATT

>TRINITY_DN43159_c1_g3_i1 from sample A7 / Example unspliced isoform:

CCCCAATATGCAGTCCAGACTTCCTCGATCTCTTCCTTCTCGACTGCTCTTCCTGCCTTTCTGAGTTATGCCACATAGCTAATAATTCCTTGATCTCTACATCCTCACCTGCTCCTCCTACTTCCCTAACTAACAGTTATGTGGCATAGCTAAGAATAATCCTTGTAACTGGATCGATGGGACGAATGGTGACTGAGAAT
ATCTCGTGCCCTAGCACCGACACGTTGACACAACAAATAGAACCCACAATAAAAAAGCATTGAGAACCCACGGTGATAGAGCGTTGAAGTGCTGAAGAGGACCAATTTATTCAAATCTGCATCAAGGCTATTCAGgtatcacattttgagagatatggatgcatatttaagactcattttttagaattatgccaaactgg
agaattcacaatggaagcaattggtttgcaatttaatgaagaaaagggttggtacccagatagcaagtgtcgggtacttttagatttcaggtcaatgtctgaatgtaaagaagagattgataatgcacatgaacgcatttagttgttaaaggttttcaaagccagattttaattgacaagagagagctatcgtaagcttt
cagatgaattcgcacgagctgggggtgtacactttgaatgccaaatgtcaatagttccaatcctattttcattatttacaaataagagcacgtgtatgtgttggcatggaaaatatataggaggacttctatattcttcaagctgatcatattcaaagagtgtgactttcatcgatgcaaggtgcacacagATGTAGTTC
AAATGCTGCTCAGAAAAGCATACAAGGATAACCACCTCAGACATCTGTGCCAATTATCATCTTTCAGGTTGATAGACTATTATGCAAGCTTATTGCACTTGGATATTCCCCATAAGTGGCAGTACAAGTCGTGGAGTCACAAACATTATTTGGGTCCGAGGATATGACAATTAAAGGAGAATCGGTTGTTCATGCACTAG
TGGCAAATTAATCACATCTCTTTGGAGAAGAATTTAACTGTACTGTTAAGGCACTCCTTACATAAGGTCACCGGTTCGAAACTCCATGGGTGCAAGCCTTACAAAAAAAAGGTTAGGGTTTTGGATCCTCTACAATCTTCTTGGAAAACCATGTGTGGCTAGCTCCACTTATCAGAAATGCAACTTTCTCATATGAACTG
TATTTTGAAATTTTCAGTCTTCTTTAGTGCATTGGAAAACTCCCAAGAATACCAGTAGCACATAAATGGGTGACGCCCATTTTGTCAAGGTTTTCAGCCAAAACACACTGCTCAATTCCTAAAACAAGCGATTTTCAGTTTTGACCCCAAAATGCAGAATCAGGATCTGTCCTGAAATGGACCCTGATAAGGCCATAACT
TTGATTATTAATTTATTTCTATTTCATAAAGTATCAAGAAGGAAACAAATATATATTGATCTATTTGGGGAACACGGGAATTGGAATGGGCCACAAATGGTGAAAAGATAAACCAAATAGAGGAAAGCTCAAGACAAAAAGGGATGGTGCATTAAATGATGATAGATGGGCATGTTCAAACTTGAGAACAGCTGTATAGA
GAGATGCTGCCACCTTCAGTGCAATAAACTAACATGAAGCTGTACTTTATCCAAGAGGCTCATGGAAAGAAATGCAACTATTTCAACTTGAGACTGCCATTATATCAAGAATAATAATATTTTATGCCAATGGTGGGCTAGGCGACCACGAAGATCATAGGCATACATACCTTACAAAAGGATT

Intron 2 GTATCACATT ... CATCTTTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	30.61	68	35	25
A2	28.32	62	25	24
A3	30.91	38	18	16
A4	20.75	21	6	5
A5	27.27	24	10	8
A6	22.07	226	52	76
A7	21.47	300	71	93
A8	22.08	360	75	129
A9	22.26	309	98	79
A10	22.47	257	58	91

>TRINITY_DN115017_c0_g1_i2 from sample A2 / Example spliced isoform

CAATATGCAGTCCAGACTTCCTCGATCTCTTCCTTCTCGACTGCTCTTCCTGCCTTTCTGAGTTATGCCACATAGCTAATAATTCCTTGATCTCTACATCCCCACCTGCTCCTCCTACTTCCCTAACTAACAGTTATGTGGCATAGCTAAGAATACTCCTTGTAACTGGATCGATGGGACGAATGGTGACTGAGAATATC
TCGTGCCCTAGCACCGACACGTTGACACAACAAATAGAACCCACAATAAAAAAGCATTGAGAACCCACGGTGATAGAGCGTTGAAGTGCTGAAGAGGACCAATTTATTCAAATCTGCATCAAGGCTATTCAGGTTGATAGACTATTATGCAAGCTTATTGCACTTGGATATTCCCCATAAGTGGCAGTACAAGTCGTGGA
GTCACAAACATTATTTGGGTCCGAGGATATGACAATTAAAGGAGAATCGGTTGTTCATGCACTAGTGGCAAATTAATCACATCTCTTTGGAGAAGAATTTAACTGTACTGTTAAGGCACTCCTTACATAAGGTCACCGGTTCGAAACTCCATGGGTGCAAGCCTTACAAAAAAAAGGTTAGGGTTTTGGATCCTCTACAA
TCTTCTTGGAAAACCATGTGTGGCTAGCTCCACTTATCAGAAATGCAACTTTCTCATATGAACTGTATTTTGAAATTTTCAGTCTTCTTTAGTGCATTGGAAAACTCCCAAGAATACCAGTAGCACATAAATGGGTGACGCCCATTTTGTCAAGGTTTTCAGCCAAAACACACTGCTCAATTCCTAAAACAAGCGATTTT
CAGTTTTGACCCCAAAATGCAGAATCAGGATCTGTCCTGAAATGGACCCCGATAAGGCCATAACTTTGATTATTAATTTATTTCTATTTCATAAAGTATCAAGAAGGAAACAAATATATATTGATCTATTTGGGGAACACGGGAATTGGAATGTGCCACAAATGGTGAAAAGATAAACCAAATAGAGGAAAGCTCAAGAC
AAAAAGGGATGGTGCATTAAATGATGATAGATGGGCATGTTGAAACTTGAGAACAGCTGTATAGAGAGATGCTGCCACCTTCAATGCAATAAACCAACATGAAGCTGTACTTTATCCAAGAGGCTCATGGAAAGAAATGCAACTATTTCAACTTGAGACTGCCATTATATCAAGAATAATAATATTTTATGCCAATGGTG
GGCTAGGCGACCACGAAGATCATTGGCATACATACCTTACAAAAGGATTGCACGGCTCATTGGGATGGGTAGAGACTAGAAATCAACCAAAAATGCCAATAAATTCCTTGAAATGTA

>TRINITY_DN115017_c0_g1_i1 from sample A2 / Example unspliced isoform:

CAATATGCAGTCCAGACTTCCTCGATCTCTTCCTTCTCGACTGCTCTTCCTGCCTTTCTGAGTTATGCCACATAGCTAATAATTCCTTGATCTCTACATCCCCACCTGCTCCTCCTACTTCCCTAACTAACAGTTATGTGGCATAGCTAAGAATACTCCTTGTAACTGGATCGATGGGACGAATGGTGACTGAGAATATC
TCGTGCCCTAGCACCGACACGTTGACACAACAAATAGAACCCACAATAAAAAAGCATTGAGAACCCACGGTGATAGAGCGTTGAAGTGCTGAAGAGGACCAATTTATTCAAATCTGCATCAAGGCTATTCAGgtatcacattttgagagatatggatgcatatttaagactcattttttagaattatgccaaactggaga
attcacaatggaagcaattggtttgcaatttaatgaagaaaagggttggtacccagatagcaagtgtcgggtatttttagatttcaggtcaatgtctgaatgtaaagaagagattgataatgcacatgaacgcatttagttgttaaaggttttcaaagccagattttaattgacaagagagagctatcgtaagctttcag
atgaattcgcacgagctgggggtgtacactttgaatgccaaatgtcaatagttccaatcctattttcattatttacaaataagagcacgtgtatgtgttggcatggaaaatatataggaggacttctatattcttcaagctgatcatattcaaagagtgtgtctttcatcgatgcaaggtgcacacagatgtagttcaaa
tgctgctcagaaaagcatacaaggataaccacctcagacatctgtgccaattatcatctttcagGTTGATAGACTATTATGCAAGCTTATTGCACTTGGATATTCCCCATAAGTGGCAGTACAAGTCGTGGAGTCACAAACATTATTTGGGTCCGAGGATATGACAATTAAAGGAGAATCGGTTGTTCATGCACTAGTGG
CAAATTAATCACATCTCTTTGGAGAAGAATTTAACTGTACTGTTAAGGCACTCCTTACATAAGGTCACCGGTTCGAAACTCCATGGGTGCAAGCCTTACAAAAAAAAGGTTAGGGTTTTGGATCCTCTACAATCTTCTTGGAAAACCATGTGTGGCTAGCTCCACTTATCAGAAATGCAACTTTCTCATATGAACTGTAT
TTTGAAATTTTCAGTCTTCTTTAGTGCATTGGAAAACTCCCAAGAATACCAGTAGCACATAAATGGGTGACGCCCATTTTGTCAAGGTTTTCAGCCAAAACACACTGCTCAATTCCTAAAACAAGCGATTTTCAGTTTTGACCCCAAAATGCAGAATCAGGATCTGTCCTGAAATGGACCCCGATAAGGCCATAACTTTG
ATTATTAATTTATTTCTATTTCATAAAGTATCAAGAAGGAAACAAATATATATTGATCTATTTGGGGAACACGGGAATTGGAATGTGCCACAAATGGTGAAAAGATAAACCAAATAGAGGAAAGCTCAAGACAAAAAGGGATGGTGCATTAAATGATGATAGATGGGCATGTTGAAACTTGAGAACAGCTGTATAGAGAG
ATGCTGCCACCTTCAATGCAATAAACCAACATGAAGCTGTACTTTATCCAAGAGGCTCATGGAAAGAAATGCAACTATTTCAACTTGAGACTGCCATTATATCAAGAATAATAATATTTTATGCCAATGGTGGGCTAGGCGACCACGAAGATCATTGGCATACATACCTTACAAAAGGATTGCACGGCTCATTGGGATGG
GTAGAGACTAGAAATCAACCAAAAATGCCAATAAATTCCTTGAAATGTA

Intron 3 GCTAGGATTT ... TTCCATCCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	69.52	4	4	14.3
A2	49.77	3.3	3	2.8
A3	73.99	4.8	15	10.8
A4	62.5	0.8	1	1
A5	100	0	8	2.3
A6	33.98	6.8	5	1.5
A7	23.37	11.8	1	6.3
A8	35.04	15	10	6
A9	21.79	20.5	5	6.5
A10	19.03	10.5	3	2

>TRINITY_DN131037_c2_g1_i5 from sample A1 / Example spliced isoform

AAAAAACAAAGAATAAAACCTTTACCCCAATATGCAGTCCAGACTTCCTCGATCTCTTCCTTCTCGACTGCTCTTCCTGCCTTTCTGAGTTATGCCACATAGCTAATAATTCCTTGATCTCTACATCCCCACCTGCTCCTCCTACTTCCCTAACTAACAGTTATGTGGCATAGCTAAGAATACTCCTTGTAACTGGATCG
ATGGGACGAATGGTGACTGAGAATATCTCGTGCCCTAGCACCGACACGTTGACACAACAAATAGAACCCACAATAAAAAAGCATTGAGAACCCACGGTGATAGAGCGTTGAAGTGCTGAAGAGGACCAATTTATTCAAATCTGCATCAAGGCTATTCAGGTATCACATTTTGAGAGATATGGATGCATATTTAAGACTCA
TTTTTTAGAATTATGCCAAACTGGAGAATTCACAATGGAAGCAATTGGTTTGCAATTTAATGAAGAAAAGGGTTGGTACCCAGATAGCAAGTGTCGGGTACTTTTAGATTTCAGGTCAATGTCTGAATGTAAAGAAGAGATTGATAATGCACATGAACGCATTTAGTTGTTAAAGGTTTTCAAAGCCAGATTTTAATTGA
CAAGAGAGAGCTATCGTAAGCTTTCAGATGAATTCGCACGAGCTGGGGGTGTACACTTTGAATGCCAAATGTCAATAGTTCCAATCCTATTTTCATTATTTACAAATAAGAGCACGTGTATGTGTTGGCATGGAAAATATATAGGAGGACTTCTATATTCTTCAAGCTGATCATATTCAAAGAGTGTGACTTTCATCGAT
GCAAGGTGCACACAGATGTAGTTCAAATGCTGCTCAGAAAAGCATACAAGGATAACCACCTCAGACATCTGTGCCAATTAGTATGGTTGAGAGAATT

>TRINITY_DN131037_c2_g1_i1 from sample A1 / Example unspliced isoform:

AAAAAACAAAGAATAAAACCTTTACCCCAATATGCAGTCCAGACTTCCTCGATCTCTTCCTTCTCGACTGCTCTTCCTGCCTTTCTGAGTTATGCCACATAGCTAATAATTCCTTGATCTCTACATCCCCACCTGCTCCTCCTACTTCCCTAACTAACAGTTATGTGGCATAGCTAAGAATACTCCTTGTAACTGGATCG
ATGGGACGAATGGTGACTGAGAATATCTCGTGCCCTAGCACCGACACGTTGACACAACAAATAGAACCCACAATAAAAAAGCATTGAGAACCCACGGTGATAGAGCGTTGAAGTGCTGAAGAGGACCAATTTATTCAAATCTGCATCAAGGCTATTCAGGTATCACATTTTGAGAGATATGGATGCATATTTAAGACTCA
TTTTTTAGAATTATGCCAAACTGGAGAATTCACAATGGAAGCAATTGGTTTGCAATTTAATGAAGAAAAGGGTTGGTACCCAGATAGCAAGTGTCGGGTACTTTTAGATTTCAGGTCAATGTCTGAATGTAAAGAAGAGATTGATAATGCACATGAACGCATTTAGTTGTTAAAGGTTTTCAAAGCCAGATTTTAATTGA
CAAGAGAGAGCTATCGTAAGCTTTCAGATGAATTCGCACGAGCTGGGGGTGTACACTTTGAATGCCAAATGTCAATAGTTCCAATCCTATTTTCATTATTTACAAATAAGAGCACGTGTATGTGTTGGCATGGAAAATATATAGGAGGACTTCTATATTCTTCAAGCTGATCATATTCAAAGAGTGTGACTTTCATCGAT
GCAAGGTGCACACAGgctaggatttttactccggtagaaattgtggaaaggacatgaaaataattgctttcattgttcaattctgcatacatggtatatccaggcttgcgtgcgtggcccaacccttagtcattagctaactcccagctcattggttttccatccagATGTAGTTCAAATGCTGCTCAGAAAAGCATACA
AGGATAACCACCTCAGACATCTGTGCCAATTAGTATGGTTGAGAGAATT

Intron 4 GTATCACATT ... CATCTTTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	32.34	68	35	30
A2	28.32	62	25	24
A3	31.53	38	18	17
A4	19.23	21	6	4
A5	27.27	24	10	8
A6	21.8	226	52	74
A7	21.47	300	71	93
A8	21.91	360	75	127
A9	22.36	309	98	80
A10	22.36	257	58	90

>TRINITY_DN43159_c1_g3_i4 from sample A7 / Example spliced isoform

CCCCAATATGCAGTCCAGACTTCCTCGATCTCTTCCTTCTCGACTGCTCTTCCTGCCTTTCTGAGTTATGCCACATAGCTAATAATTCCTTGATCTCTACATCCTCACCTGCTCCTCCTACTTCCCTAACTAACAGTTATGTGGCATAGCTAAGAATAATCCTTGTAACTGGATCGATGGGACGAATGGTGACTGAGAAT
ATCTCGTGCCCTAGCACCGACACGTTGACACAACAAATAGAACCCACAATAAAAAAGCATTGAGAACCCACGGTGATAGAGCGTTGAAGTGCTGAAGAGGACCAATTTATTCAAATCTGCATCAAGGCTATTCAGGTTGATAGACTATTATGCAAGCTTATTGCACTTGGATATTCCCCATAAGTGGCAGTACAAGTCGT
GGAGTCACAAACATTATTTGGGTCCGAGGATATGACAATTAAAGGAGAATCGGTTGTTCATGCACTAGTGGCAAATTAATCACATCTCTTTGGAGAAGAATTTAACTGTACTGTTAAGGCACTCCTTACATAAGGTCACCGGTTCGAAACTCCATGGGTGCAAGCCTTACAAAAAAAAGGTTAGGGTTTTGGATCCTCTA
CAATCTTCTTGGAAAACCATGTGTGGCTAGCTCCACTTATCAGAAATGCAACTTTCTCATATGAACTGTATTTTGAAATTTTCAGTCTTCTTTAGTGCATTGGAAAACTCCCAAGAATACCAGTAGCACATAAATGGGTGACGCCCATTTTGTCAAGGTTTTCAGCCAAAACACACTGCTCAATTCCTAAAACAAGCGAT
TTTCAGTTTTGACCCCAAAATGCAGAATCAGGATCTGTCCTGAAATGGACCCTGATAAGGCCATAACTTTGATTATTAATTTATTTCTATTTCATAAAGTATCAAGAAGGAAACAAATATATATTGATCTATTTGGGGAACACGGGAATTGGAATGGGCCACAAATGGTGAAAAGATAAACCAAATAGAGGAAAGCTCAA
GACAAAAAGGGATGGTGCATTAAATGATGATAGATGGGCATGTTCAAACTTGAGAACAGCTGTATAGAGAGATGCTGCCACCTTCAGTGCAATAAACTAACATGAAGCTGTACTTTATCCAAGAGGCTCATGGAAAGAAATGCAACTATTTCAACTTGAGACTGCCATTATATCAAGAATAATAATATTTTATGCCAATG
GTGGGCTAGGCGACCACGAAGATCATAGGCATACATACCTTACAAAAGGATT

>TRINITY_DN43159_c1_g3_i7 from sample A7 / Example unspliced isoform:

CCCCAATATGCAGTCCAGACTTCCTCGATCTCTTCCTTCTCGACTGCTCTTCCTGCCTTTCTGAGTTATGCCACATAGCTAATAATTCCTTGATCTCTACATCCTCACCTGCTCCTCCTACTTCCCTAACTAACAGTTATGTGGCATAGCTAAGAATAATCCTTGTAACTGGATCGATGGGACGAATGGTGACTGAGAAT
ATCTCGTGCCCTAGCACCGACACGTTGACACAACAAATAGAACCCACAATAAAAAAGCATTGAGAACCCACGGTGATAGAGCGTTGAAGTGCTGAAGAGGACCAATTTATTCAAATCTGCATCAAGGCTATTCAGgtatcacattttgagagatatggatgcatatttaagactcattttttagaattatgccaaactgg
agaattcacaatggaagcaattggtttgcaatttaatgaagaaaagggttggtacccagatagcaagtgtcgggtacttttagatttcaggtcaatgtctgaatgtaaagaagagattgataatgcacatgaacgcatttagttgttaaaggttttcaaagccagattttaattgacaagagagagctatcgtaagcttt
cagatgaattcgcacgagctgggggtgtacactttgaatgccaaatgtcaatagttccaatcctattttcattatttacaaataagagcacgtgtatgtgttggcatggaaaatatataggaggacttctatattcttcaagctgatcatattcaaagagtgtgactttcatcgatgcaaggtgcacacaggctaggatt
tttactccggtagaaattgtggaaagggcattaaaataattgctttcattgttcaattctgcatacatggtatatccaggcttgcgtgcgtggcccaacccttagtcattagctaactcccagctcattggttttccatccagatgtagttcaaatgctgctcagaaaagcatacaaggataaccacctcagacatctgt
gccaattatcatctttcagGTTGATAGACTATTATGCAAGCTTATTGCACTTGGATATTCCCCATAAGTGGCAGTACAAGTCGTGGAGTCACAAACATTATTTGGGTCCGAGGATATGACAATTAAAGGAGAATCGGTTGTTCATGCACTAGTGGCAAATTAATCACATCTCTTTGGAGAAGAATTTAACTGTACTGTTA
AGGCACTCCTTACATAAGGTCACCGGTTCGAAACTCCATGGGTGCAAGCCTTACAAAAAAAAGGTTAGGGTTTTGGATCCTCTACAATCTTCTTGGAAAACCATGTGTGGCTAGCTCCACTTATCAGAAATGCAACTTTCTCATATGAACTGTATTTTGAAATTTTCAGTCTTCTTTAGTGCATTGGAAAACTCCCAAGA
ATACCAGTAGCACATAAATGGGTGACGCCCATTTTGTCAAGGTTTTCAGCCAAAACACACTGCTCAATTCCTAAAACAAGCGATTTTCAGTTTTGACCCCAAAATGCAGAATCAGGATCTGTCCTGAAATGGACCCTGATAAGGCCATAACTTTGATTATTAATTTATTTCTATTTCATAAAGTATCAAGAAGGAAACAA
ATATATATTGATCTATTTGGGGAACACGGGAATTGGAATGGGCCACAAATGGTGAAAAGATAAACCAAATAGAGGAAAGCTCAAGACAAAAAGGGATGGTGCATTAAATGATGATAGATGGGCATGTTCAAACTTGAGAACAGCTGTATAGAGAGATGCTGCCACCTTCAGTGCAATAAACTAACATGAAGCTGTACTTT
ATCCAAGAGGCTCATGGAAAGAAATGCAACTATTTCAACTTGAGACTGCCATTATATCAAGAATAATAATATTTTATGCCAATGGTGGGCTAGGCGACCACGAAGATCATAGGCATACATACCTTACAAAAGGATT

Intron 5 GTATCACATT ... TTCCATCCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	70	15	35	14
A2	58.14	18	25	4
A3	51.43	17	18	12
A4	60	4	6	1
A5	71.43	4	10	2
A6	50.49	51	52	3
A7	58.2	51	71	10
A8	54.35	63	75	10
A9	52.97	87	98	10
A10	53.21	51	58	5

>TRINITY_DN43159_c1_g3_i5 from sample A7 / Example spliced isoform

CCCCAATATGCAGTCCAGACTTCCTCGATCTCTTCCTTCTCGACTGCTCTTCCTGCCTTTCTGAGTTATGCCACATAGCTAATAATTCCTTGATCTCTACATCCTCACCTGCTCCTCCTACTTCCCTAACTAACAGTTATGTGGCATAGCTAAGAATAATCCTTGTAACTGGATCGATGGGACGAATGGTGACTGAGAAT
ATCTCGTGCCCTAGCACCGACACGTTGACACAACAAATAGAACCCACAATAAAAAAGCATTGAGAACCCACGGTGATAGAGCGTTGAAGTGCTGAAGAGGACCAATTTATTCAAATCTGCATCAAGGCTATTCAGATGTAGTTCAAATGCTGCTCAGAAAAGCATACAAGGATAACCACCTCAGACATCTGTGCCAATTA
TCATCTTTCAGGTTGATAGACTATTATGCAAGCTTATTGCACTTGGATATTCCCCATAAGTGGCAGTACAAGTCGTGGAGTCACAAACATTATTTGGGTCCGAGGATATGACAATTAAAGGAGAATCGGTTGTTCATGCACTAGTGGCAAATTAATCACATCTCTTTGGAGAAGAATTTAACTGTACTGTTAAGGCACTC
CTTACATAAGGTCACCGGTTCGAAACTCCATGGGTGCAAGCCTTACAAAAAAAAGGTTAGGGTTTTGGATCCTCTACAATCTTCTTGGAAAACCATGTGTGGCTAGCTCCACTTATCAGAAATGCAACTTTCTCATATGAACTGTATTTTGAAATTTTCAGTCTTCTTTAGTGCATTGGAAAACTCCCAAGAATACCAGT
AGCACATAAATGGGTGACGCCCATTTTGTCAAGGTTTTCAGCCAAAACACACTGCTCAATTCCTAAAACAAGCGATTTTCAGTTTTGACCCCAAAATGCAGAATCAGGATCTGTCCTGAAATGGACCCTGATAAGGCCATAACTTTGATTATTAATTTATTTCTATTTCATAAAGTATCAAGAAGGAAACAAATATATAT
TGATCTATTTGGGGAACACGGGAATTGGAATGGGCCACAAATGGTGAAAAGATAAACCAAATAGAGGAAAGCTCAAGACAAAAAGGGATGGTGCATTAAATGATGATAGATGGGCATGTTCAAACTTGAGAACAGCTGTATAGAGAGATGCTGCCACCTTCAGTGCAATAAACTAACATGAAGCTGTACTTTATCCAAGA
GGCTCATGGAAAGAAATGCAACTATTTCAACTTGAGACTGCCATTATATCAAGAATAATAATATTTTATGCCAATGGTGGGCTAGGCGACCACGAAGATCATAGGCATACATACCTTACAAAAGGATT

>TRINITY_DN43159_c1_g3_i7 from sample A7 / Example unspliced isoform:

CCCCAATATGCAGTCCAGACTTCCTCGATCTCTTCCTTCTCGACTGCTCTTCCTGCCTTTCTGAGTTATGCCACATAGCTAATAATTCCTTGATCTCTACATCCTCACCTGCTCCTCCTACTTCCCTAACTAACAGTTATGTGGCATAGCTAAGAATAATCCTTGTAACTGGATCGATGGGACGAATGGTGACTGAGAAT
ATCTCGTGCCCTAGCACCGACACGTTGACACAACAAATAGAACCCACAATAAAAAAGCATTGAGAACCCACGGTGATAGAGCGTTGAAGTGCTGAAGAGGACCAATTTATTCAAATCTGCATCAAGGCTATTCAGgtatcacattttgagagatatggatgcatatttaagactcattttttagaattatgccaaactgg
agaattcacaatggaagcaattggtttgcaatttaatgaagaaaagggttggtacccagatagcaagtgtcgggtacttttagatttcaggtcaatgtctgaatgtaaagaagagattgataatgcacatgaacgcatttagttgttaaaggttttcaaagccagattttaattgacaagagagagctatcgtaagcttt
cagatgaattcgcacgagctgggggtgtacactttgaatgccaaatgtcaatagttccaatcctattttcattatttacaaataagagcacgtgtatgtgttggcatggaaaatatataggaggacttctatattcttcaagctgatcatattcaaagagtgtgactttcatcgatgcaaggtgcacacaggctaggatt
tttactccggtagaaattgtggaaagggcattaaaataattgctttcattgttcaattctgcatacatggtatatccaggcttgcgtgcgtggcccaacccttagtcattagctaactcccagctcattggttttccatccagATGTAGTTCAAATGCTGCTCAGAAAAGCATACAAGGATAACCACCTCAGACATCTGT
GCCAATTATCATCTTTCAGGTTGATAGACTATTATGCAAGCTTATTGCACTTGGATATTCCCCATAAGTGGCAGTACAAGTCGTGGAGTCACAAACATTATTTGGGTCCGAGGATATGACAATTAAAGGAGAATCGGTTGTTCATGCACTAGTGGCAAATTAATCACATCTCTTTGGAGAAGAATTTAACTGTACTGTTA
AGGCACTCCTTACATAAGGTCACCGGTTCGAAACTCCATGGGTGCAAGCCTTACAAAAAAAAGGTTAGGGTTTTGGATCCTCTACAATCTTCTTGGAAAACCATGTGTGGCTAGCTCCACTTATCAGAAATGCAACTTTCTCATATGAACTGTATTTTGAAATTTTCAGTCTTCTTTAGTGCATTGGAAAACTCCCAAGA
ATACCAGTAGCACATAAATGGGTGACGCCCATTTTGTCAAGGTTTTCAGCCAAAACACACTGCTCAATTCCTAAAACAAGCGATTTTCAGTTTTGACCCCAAAATGCAGAATCAGGATCTGTCCTGAAATGGACCCTGATAAGGCCATAACTTTGATTATTAATTTATTTCTATTTCATAAAGTATCAAGAAGGAAACAA
ATATATATTGATCTATTTGGGGAACACGGGAATTGGAATGGGCCACAAATGGTGAAAAGATAAACCAAATAGAGGAAAGCTCAAGACAAAAAGGGATGGTGCATTAAATGATGATAGATGGGCATGTTCAAACTTGAGAACAGCTGTATAGAGAGATGCTGCCACCTTCAGTGCAATAAACTAACATGAAGCTGTACTTT
ATCCAAGAGGCTCATGGAAAGAAATGCAACTATTTCAACTTGAGACTGCCATTATATCAAGAATAATAATATTTTATGCCAATGGTGGGCTAGGCGACCACGAAGATCATAGGCATACATACCTTACAAAAGGATT