NA ----> NA

Intron 1 GTACGAATTA ... ATTGCACAAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	55.32	21	30	22
A2	67.68	16	37	30
A3	39.62	32	25	17
A4	61.47	21	35	32
A5	57.14	9	9	15
A6	49.15	45	44	43
A7	45.54	55	43	49
A8	36.71	50	28	30
A9	41.6	73	57	47
A10	43.5	63	52	45

>TRINITY_DN122657_c2_g1_i7 from sample A3 / Example spliced isoform

CCTCCCTCACTCCAATGGAGAATAAGAACCTTTGGTCCACTGAAAGTTGGTGCAGATTCTCTCCCTCTGTTGATGGTAATAAGAGCGATTGAATTCTAATCCATCATACAAGGAGGAACGAGGACACAAACAACCGCGGATCAGTAGGAGGAAGGTGGACACAAACAACTGCGGATCATTAGGTACAAATTAATATCCCG
TATTTTTGAAGCTTTCTCTCTGAAGTGGTTTGGTATAAGTATGGAGAGAGCGAGACGAGCTGTTCATGCTGGATCCTGGTACACTGATAACGGTATGCAATAGTCTTTTCCCTTGCTTTGCCTTTTCAATTCATCAATTTTTGTGGGGTGTACCCTCTTTTCAAGGTCGGCACCCCATTGACTCATATATCCCTC

>TRINITY_DN122657_c2_g1_i9 from sample A3 / Example unspliced isoform:

CCTCCCTCACTCCAATGGAGAATAAGAACCTTTGGTCCACTGAAAGTTGGTGCAGATTCTCTCCCTCTGTTGATGGTAATAAGAGCGATTGAATTCTAATCCATCATACAAGGAGGAACGAGGACACAAACAACCGCGGATCAGTAGgtacgaattattatcctctatttttgaagctctctttctgaagtggtttgctc
actgttgatggtaagtgccattgaattctaatccattgcacaagGAGGAAGGTGGACACAAACAACTGCGGATCATTAGGTACAAATTAATATCCCGTATTTTTGAAGCTTTCTCTCTGAAGTGGTTTGGTATAAGTATGGAGAGAGCGAGACGAGCTGTTCATGCTGGATCCTGGTACACTGATAACGGTATGCAATAG
TCTTTTCCCTTGCTTTGCCTTTTCAATTCATCAATTTTTGTGGGGTGTACCCTCTTTTCAAGGTCGGCACCCCATTGACTCATATATCCCTC

Intron 2 GTGAGTTATT ... TTTGGTGTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	48.94	24	23	6
A2	47.37	20	18	6
A3	49.23	33	32	1
A4	50	26	26	6
A5	45.16	17	14	2
A6	47.53	85	77	0
A7	46.61	118	103	1
A8	51.22	40	42	8
A9	46.76	74	65	1
A10	49.02	104	100	1

>TRINITY_DN119431_c9_g1_i5 from sample A1 / Example spliced isoform

TGGAGAATAAGAACCTTTGGTCCACTGAAAGTTGGTGCAGATTCTCTCCCTCTGTTGATGGTAATAAGAGCGATTGAATTCTAATCCATCATACAAGGAGGAACGAGGACACAAACAACCGCGGATCAGTAGCTTTCTCTCTGAAGTGGTTTGGTATAAGTATGGAGAGAGCGAGACGAGCTGTTCATGCTGGATCCTGG
TACACTGATAACGCCAGGCAATTGGGAGAGGAGCTAGATAGATGGTTAAGATCTTGTGGCCAGTCAAAATCTCCTGATGTACGGGGTGTGATTGCTCCGCATGCTGGTTATTCATATTCAGGTCACTGTGCAGCATTTGCATTTGCAAATATTGATCCCCAAAGAACATCATCCCTTGCTTCCTTCTTGGAATATTTGTT
TGAGGTTAGGCAGTTAGTGCTCTTGGATTGTAGCCCTTTCATGTGTCTTGGTTCTGTTGTGATTTCCCTTCCCTTAATGTAGAATGAATTGGCTTCTATTTCATTTGGTTAGATTCCTTCACTAGGTGTCTGATAGGTTAAAAGCAAATACAACAATGCTTAATGCCTAGTTTGAACTTAGGCAAGTGCTGGCACTGGAA
TACACACTGCAATATGATAGAGAGATAGCCTGGAAAAGGATACTGCTTGGAAACTCAATTTAAACTATTTGAGATCCATTCTGGCCTTAGATGAATTTAATCTTAATCCCCTAATGGCTATGACTACAATTTATGTCACCAATTTATCAAATGCTATTATAACTTATACGCATCGAAAGCTTTTTTAAGCTTTCTCACAC
CTTAAAAAAACATGTGGCCATCCGTAAATATATAAGTTGCAAGTAGAAATTAGCTAGGTTTGTTTTGAAAAATGAATAAATTGGAGATAGAAATACCATACAGACATTCCTCGAGAATTGTATGAAAAATTTAAACGAAAGCTTGTTTTGTGAGGAAGATGGTTTCAGAAGGTAGGTATGCTTATTTTGTTACAACCTAC
AGCTCACATGCCAGAGAGAAAAGGCTCGTATCACTCATGTTTGCTA

>TRINITY_DN119431_c9_g1_i4 from sample A1 / Example unspliced isoform:

TGGAGAATAAGAACCTTTGGTCCACTGAAAGTTGGTGCAGATTCTCTCCCTCTGTTGATGGTAATAAGAGCGATTGAATTCTAATCCATCATACAAGGAGGAACGAGGACACAAACAACCGCGGATCAGTAGCTTTCTCTCTGAAGTGGTTTGGTATAAGTATGGAGAGAGCGAGACGAGCTGTTCATGCTGGATCCTGG
TACACTGATAACGCCAGGCAATTGGGAGAGGAGCTAGATAGATGGTTAAGATCTTGTGGCCAGTCAAAATCTCCTGATGTACGGGGTGTGATTGCTCCGCATGCTGGTTATTCATATTCAGGTCACTGTGCAGCATTTGCATTTGCAAATATTGATCCCCAAAGAACgtgagttattcactttccttccttcgactgttt
gattgatttcagtatctctttcatgcattatcccccaacatttatttcattgcattctgctgagagtgtttcttatgccattttggagcatttctcaataagcattgcttattttttctctactacatatttgacatatgtgcacgatgtttactaacttttaaattgttttggtgtagATCATCCCTTGCTTCCTTCTT
GGAATATTTGTTTGAGGTTAGGCAGTTAGTGCTCTTGGATTGTAGCCCTTTCATGTGTCTTGGTTCTGTTGTGATTTCCCTTCCCTTAATGTAGAATGAATTGGCTTCTATTTCATTTGGTTAGATTCCTTCACTAGGTGTCTGATAGGTTAAAAGCAAATACAACAATGCTTAATGCCTAGTTTGAACTTAGGCAAGTG
CTGGCACTGGAATACACACTGCAATATGATAGAGAGATAGCCTGGAAAAGGATACTGCTTGGAAACTCAATTTAAACTATTTGAGATCCATTCTGGCCTTAGATGAATTTAATCTTAATCCCCTAATGGCTATGACTACAATTTATGTCACCAATTTATCAAATGCTATTATAACTTATACGCATCGAAAGCTTTTTTAA
GCTTTCTCACACCTTAAAAAAACATGTGGCCATCCGTAAATATATAAGTTGCAAGTAGAAATTAGCTAGGTTTGTTTTGAAAAATGAATAAATTGGAGATAGAAATACCATACAGACATTCCTCGAGAATTGTATGAAAAATTTAAACGAAAGCTTGTTTTGTGAGGAAGATGGTTTCAGAAGGTAGGTATGCTTATTTT
GTTACAACCTACAGCTCACATGCCAGAGAGAAAAGGCTCGTATCACTCATGTTTGCTA

Intron 3 GTACGAATTA ... ATTTTTGAAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	32.22	62	30	29.3
A2	44.45	41	37	28.7
A3	29.64	63	25	28.4
A4	49.8	32	35	28.6
A5	40.12	23	9	21.9
A6	34.15	116	44	77.5
A7	34.31	123	43	87
A8	33.46	80	28	53
A9	32.89	125	57	66
A10	34.84	104.9	52	60.9

>TRINITY_DN119431_c9_g1_i5 from sample A1 / Example spliced isoform

TGGAGAATAAGAACCTTTGGTCCACTGAAAGTTGGTGCAGATTCTCTCCCTCTGTTGATGGTAATAAGAGCGATTGAATTCTAATCCATCATACAAGGAGGAACGAGGACACAAACAACCGCGGATCAGTAGCTTTCTCTCTGAAGTGGTTTGGTATAAGTATGGAGAGAGCGAGACGAGCTGTTCATGCTGGATCCTGG
TACACTGATAACGCCAGGCAATTGGGAGAGGAGCTAGATAGATGGTTAAGATCTTGTGGCCAGTCAAAATCTCCTGATGTACGGGGTGTGATTGCTCCGCATGCTGGTTATTCATATTCAGGTCACTGTGCAGCATTTGCATTTGCAAATATTGATCCCCAAAGAACATCATCCCTTGCTTCCTTCTTGGAATATTTGTT
TGAGGTTAGGCAGTTAGTGCTCTTGGATTGTAGCCCTTTCATGTGTCTTGGTTCTGTTGTGATTTCCCTTCCCTTAATGTAGAATGAATTGGCTTCTATTTCATTTGGTTAGATTCCTTCACTAGGTGTCTGATAGGTTAAAAGCAAATACAACAATGCTTAATGCCTAGTTTGAACTTAGGCAAGTGCTGGCACTGGAA
TACACACTGCAATATGATAGAGAGATAGCCTGGAAAAGGATACTGCTTGGAAACTCAATTTAAACTATTTGAGATCCATTCTGGCCTTAGATGAATTTAATCTTAATCCCCTAATGGCTATGACTACAATTTATGTCACCAATTTATCAAATGCTATTATAACTTATACGCATCGAAAGCTTTTTTAAGCTTTCTCACAC
CTTAAAAAAACATGTGGCCATCCGTAAATATATAAGTTGCAAGTAGAAATTAGCTAGGTTTGTTTTGAAAAATGAATAAATTGGAGATAGAAATACCATACAGACATTCCTCGAGAATTGTATGAAAAATTTAAACGAAAGCTTGTTTTGTGAGGAAGATGGTTTCAGAAGGTAGGTATGCTTATTTTGTTACAACCTAC
AGCTCACATGCCAGAGAGAAAAGGCTCGTATCACTCATGTTTGCTA

>TRINITY_DN119431_c9_g1_i2 from sample A1 / Example unspliced isoform:

TGGAGAATAAGAACCTTTGGTCCACTGAAAGTTGGTGCAGATTCTCTCCCTCTGTTGATGGTAATAAGAGCGATTGAATTCTAATCCATCATACAAGGAGGAACGAGGACACAAACAACCGCGGATCAGTAGgtacgaattattatcctctatttttgaagctctctttctgaagtggtttgctcactgttgatggtaag
tgccattgaattctaatccattgcacaaggaggaaggtggacacaaacaactgcggatcattaggtacaaattaatatcccgtatttttgaagCTTTCTCTCTGAAGTGGTTTGGTATAAGTATGGAGAGAGCGAGACGAGCTGTTCATGCTGGATCCTGGTACACTGATAACGGTATGCAATAGTCTTTTCCCTTGCTT
TGCCTTTTCAATTCATCAATTTTTGTGGGGTGTACCCTCTTTTCAAGGTCGGCACCCCATTGACTCATATATCTCTCTCTATATATACATATAGTGTGTGTGTGTATTCCCTTAATTTCTACAATAGTCTGTAGCATTTTCCATGCTGTTTTTTCTATGCAAATGGTGCCCT

Intron 4 GTAGTGCATT ... TTGTTTATAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	26.58	29	15	6
A2	33.33	31	17	14
A3	22.86	27	10	6
A4	14.56	44	7	8
A5	26.53	18	5	8
A6	20.17	170.2	34	52
A7	17.76	125	24	30
A8	17.82	143	27	35
A9	17.49	151	33	31
A10	20.59	108	21	35

>TRINITY_DN119431_c9_g1_i8 from sample A1 / Example spliced isoform

TGGAGAATAAGAACCTTTGGTCCACTGAAAGTTGGTGCAGATTCTCTCCCTCTGTTGATGGTAATAAGAGCGATTGAATTCTAATCCATCATACAAGGAGGAACGAGGACACAAACAACCGCGGATCAGTAGGTACGAATTATTATCCTCTATTTTTGAAGCTCTCTTTCTGAAGTGGTTTGCTCACTGTTGATGGTAAG
TGCCATTGAATTCTAATCCATTGCACAAGGAGGAAGGTGGACACAAACAACTGCGGATCATTAGGTACAAATTAATATCCCGTATTTTTGAAGCTTTCTCTCTGAAGTGGTTTGGTATAAGTATGGAGAGAGCGAGACGAGCTGTTCATGCTGGATCCTGGTACACTGATAACGCCAGGCAATTGGGAGAGGAGCTAGAT
AGATGGTTAAGATCTTGTGGCCAGTCAAAATCTCCTGATGTACGGGGTGTGATTGCTCCGCATGCTGGTTATTCATATTCAGGTCACTGTGCAGCATTTGCATTTGCAAATATTGATCCCCAAAGAACGTCTCGGGTGTTCCTTCTTGGCCCCTCGCACCACTATTACACTCCAAAGTGTGCTCTCTCAAAGGCTACGGT
CTACAAGACACCTCTAGGAGACCTTCCGATTGACTTAGATGTTAATGATGAACTTAGAGCAACTGGAAAATTTGAGGTCATGGATCTTCAAGTAGATGAGGCAGAGCATAGCATGGAGATGCACTTACCATACCTTGCAAAAGTATTTCAGGGATGGCCGGTGAAGATTGTGCCTATTCTTGTTGGTGCTCTCAGTCCAG
AAAGTGAGGCAATGTATGGAAGTTTGCTTGCCAAGTATGTTGATGATCCAAGAAATTTTTTCTCTGTGTCATCTGACTTTTGCCACTGGGGATCCCGATTCAATTATGTATACCATGATAGAAAGCAAGGTGCGATTTACAAATCTATTGAAACCCTGGATCGGAAAGGCATGGACATCATAGAATCAGGAGATGCTGAT
TCCTTTAAAGATTACCTGCTGGAGTACGATAACACTATTTGTGGCAGACATCCTATTAGCGTGTTTCTTCATATGTTGAAGAACTGTGGAGTCAGAATAAAGATCTCTTTTCTTCAGTATGAGCAATCCAGCCAGTGCAGAAGCATGCGAGATAGCAGTGTTAGTTATGCTTCTGCAGTGGCTAAAGCAGAGGTTTAAAG
CAATATTTATAATTTTCTCAGATATTCTATAACATATTTTTAATATTTATCTTTTGGCAAACACAGGGGATGTTACTTTACTATTTAACGTGATGAATGCATTCATTTCTTTGGGTTTCTGAAATCTTCCTGCCCTGTTATTGGTCCTTATCTGTTCTTCTGTCATTTCATTGGAATAATCAAATATTTCTTACTTTATG
CTTTCTGCAACAAATGTTTCTGTTTTTTGAAGTGTAACTTCATTCCTATTGTAACAGTTAGACTCTAGCTCATGGAGACAATTATTTATTATTAGCTCTGTTTTGTTTGGGATTAGTGTGGCTGTAACTTTTCTTGTATCTCCTTTGATTCAGAATAGACACTCTCTAGTTTCTCTATTTGCATTGGATTCAC

>TRINITY_DN119431_c9_g1_i3 from sample A1 / Example unspliced isoform:

TGGAGAATAAGAACCTTTGGTCCACTGAAAGTTGGTGCAGATTCTCTCCCTCTGTTGATGGTAATAAGAGCGATTGAATTCTAATCCATCATACAAGGAGGAACGAGGACACAAACAACCGCGGATCAGTAGCTTTCTCTCTGAAGTGGTTTGGTATAAGTATGGAGAGAGCGAGACGAGCTGTTCATGCTGGATCCTGG
TACACTGATAACGCCAGGCAATTGGGAGAGGAGCTAGATAGATGGTTAAGATCTTGTGGCCAGTCAAAATCTCCTGATGTACGGGGTGTGATTGCTCCGCATGCTGGTTATTCATATTCAGGTCACTGTGCAGCATTTGCATTTGCAAATATTGATCCCCAAAGAACGTCTCGGGTGTTCCTTCTTGGCCCCTCGCACCA
CTATTACACTCCAAAGTGTGCTCTCTCAAAGGCTACGGTCTACAAGACACCTCTAGGAGACCTTCCGATTGACTTAGATGTTAATGATGAACTTAGAGCAACTGGAAAATTTGAGGTCATGGATCTTCAAGTAGATGAGGCAGAGCATAGCATGGAGATGCACTTACCATACCTTGCAAAAGTATTTCAGGGgtagtgca
tttatcccacacaagttgcaccattatcgaatcagttttgtggaggctcttgatgtaacattttctcccttgcttgtttatagATGGCCGGTGAAGATTGTGCCTATTCTTGTTGGTGCTCTCAGTCCAGAAAGTGAGGCAATGTATGGAAGTTTGCTTGCCAAGTATGTTGATGATCCAAGAAATTTTTTCTCTGTGTC
ATCTGACTTTTGCCACTGGGGATCCCGATTCAATTATGTATACCATGATAGAAAGCAAGGTGCGATTTACAAATCTATTGAAACCCTGGATCGGAAAGGCATGGACATCATAGAATCAGGAGATGCTGATTCCTTTAAAGATTACCTGCTGGAGTACGATAACACTATTTGTGGCAGACATCCTATTAGCGTGTTTCTTC
ATATGTTGAAGAACTGTGGAGTCAGAATAAAGATCTCTTTTCTTCAGTATGAGCAATCCAGCCAGTGCAGAAGCATGCGAGATAGCAGTGTTAGTTATGCTTCTGCAGTGGCTAAAGCAGAGGTTTAAAGCAATATTTATAATTTTCTCAGATATTCTATAACATATTTTTAATATTTATCTTTTGGCAAACACAGGGGA
TGTTACTTTACTATTTAACGTGATGAATGCATTCATTTCTTTGGGTTTCTGAAATCTTCCTGCCCTGTTATTGGTCCTTATCTGTTCTTCTGTCATTTCATTGGAATAATCAAATATTTCTTACTTTATGCTTTCTGCAACAAATGTTTCTGTTTTTTGAAGTGTAACTTCATTCCTATTGTAACAGTTAGACTCTAGCT
CATGGAGACAATTATTTATTATTAGCTCTGTTTTGTTTGGGATTAGTGTGGCTGTAACTTTTCTTGTATCTCCTTTGATTCAGAATAGACACTCTCTAGTTTCTCTATTTGCATTGGATTCAC

Intron 5 GTACGAATTA ... GCACAAGGAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	78.46	7	30	21
A2	87.01	5	37	30
A3	77.78	6	25	17
A4	80.72	8	35	32
A5	68.42	6	9	17
A6	68.25	20	44	42
A7	70.77	19	43	49
A8	58.82	21	28	32
A9	64.42	29	57	48
A10	69.78	21	52	45

>TRINITY_DN107552_c0_g1_i6 from sample A2 / Example spliced isoform

ACAAACAACCGCGGATCAGTAGGAAGGTGGACACAAACAACTGCGGATCATTAGGTACAAATTAATATCCCGTATTTTTGAAGCTTTCTCTCTGAAGTGGTTTGGTATAAGTATGGAGAGAGCGAGACGAGCTGTTCATGCTGGATCCTGGTACACTGATAACGCCAGGCAATTGGGAGAGGAGCTAGATAGATGGTTAA
GATCTTGTGGCCAGTCAAAATCTCCTGATGTACGGGGTGTGATTGCTCCGCATGCTGGTTATTCATATTCAGGTCACTGTGCAGCATTTGCATTTGCAAATATTGATCCCCAAAGAACGTCTCGGGTGTTCCTTCTTGGCCCCTCGCACCACTATTACACTCCAAAGTGTGCTCTCTCAAAGGCTACGGTCTACAAGACA
CCTCTAGGAGACCTTCCGATTGACTTAGATGTTAATGATGAACTTAGAGCAACTGGAAAATTTGAGGTCATGGATCTTCAAGTAGATGAGGCAGAGCATAGCATGGAGATGCACTTACCATACCTTGCAAAAGTATTTCAGGGATGGCCGGTGAAGATTGTGCCTATTCTTGTTGGTGCTCTCAGTCCAGAAAGTGAGGC
AATGTATGGAAGTTTGCTTGCCAAGTATGTTGATGATCCAAGAAATTTTTTCTCTGTGTCATCTGACTTTTGCCACTGGGGATCCCGATTCAATTATGTATACCATGATAGAAAGCAAGGTGCGATTTACAAATCTATTGAAACCCTGGATCGGAAAGGCATGGACATCATAGAATCAGGAGATGCTGATTCCTTTAAAG
ATTACCTGCTGGAGTACGATAACACTATTTGTGGCAGACATCCTATTAGCGTGTTTCTTCATATGTTGAAGAACTGTGGAGTCAGAATAAAGATCTCTTTTCTTCAGTATGAGCAATCCAGCCAGTGCAGAAGCATGCGAGATAGCAGTGTTAGTTATGCTTCTGCAGTGGCTAAAGCAGAGGTTTAAAGCAATATTTAT
AATTTTCTCAGATATTCTATAACATATTTTTAATATTTATCTTTTGGCAAACACAGGGGATGTTACTTTACTATTTAACGTGATGAATGCATTCATTTCTTTGGGTTTCTGAAATCTTCCTGCCCTGTTATTGGTCCTTATCTGTTCTTCTGTCATTTCATTGGAATAATCAAATATTTCTTACTTTATGCTTTCTGC

>TRINITY_DN107552_c0_g1_i11 from sample A2 / Example unspliced isoform:

GGAGAATAAGAACCTTTGGTCCACTGAAAGTTGGTGCAGATTCTCTCCCTCTGTTGATGGTAATAAGAGCGATTGAATTCTAATCCATCATACAAGGAGGAACGAGGACACAAACAACCGCGGATCAGTAGgtacgaattattatcctctatttttgaagctctctttctgaagtggtttgctcactgttgatggtaagt
gccattgaattctaatccattgcacaaggagGAAGGTGGACACAAACAACTGCGGATCATTAGGTACAAATTAATATCCCGTATTTTTGAAGCTTTCTCTCTGAAGTGGTTTGGTATAAGTATGGAGAGAGCGAGACGAGCTGTTCATGCTGGATCCTGGTACACTGATAACGGTATGCAATAGTCTTTTCCCTTGCTTT
GCCTTTTCAATTCATCAATTTTTGTGGGGTGTACCCTCTTTTCAAGGTCGGCACCCCATTGACTCATATATCTCTCCC