NA ----> NA

Intron 1 GCTTTGCTAC ... CACAACAGAG

Found issues: Low number of reads

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	0	1	0	0
A2	-1	0	0	0
A3	-1	0	0	0
A4	-1	0	0	0
A5	-1	0	0	0
A6	0	2	0	0
A7	33.33	4	0	2
A8	50	2	0	2
A9	14.29	6	0	1
A10	33.33	6	0	3

>TRINITY_DN39270_c0_g1_i7 from sample A9 / Example spliced isoform

TTCTTCTTCGGATATGGATCCCAAGTTTCTACGAGACAAGAGATTCTGGGCGGCAACCTTCCTCATCACTTGGGCTGCTGCGCTCCAGGTACAGGTTGGAATTGAAGCTAGAAGCATCCTCTCTTCAGAGCCAAAAGGGAGTTGCATTCACTTGCCTTGTAGGCTGTGTTTTCACCATCATTCTGACTTTAAGTTCACTA
CTTGGGCAAATGTCATCCTGCAATTTGGACTAAACTTCTCTTGGGGATTATCTAATGACGACCTCTGAATTGCTCAATATAGTACTTGTATCTATAGGCACACATGACATGGTTGCAGAGGCAGGTTTCTTTCCGGGAGACGTTTGGTGATGTTAAAGAGAAAGCCAGTGTGGTTACAAAGAAAACAGATGATCTATCCG
AGGACAATCTAGGGGAATTTAATGATAATCAAGTAATATCCGAATATCAAGGAAATGATGCAGAGCGCCTTGAATGAG

>TRINITY_DN39270_c0_g1_i2 from sample A9 / Example unspliced isoform:

ACTTGGGCTGCTGCGCTCCAGgctttgctaccgtgttaaagaaaataaaaaaaaattacagctacagcacacagggagagagacagccacaacagagGTACAGGTTGGAATTGAAGCTAGAAGCATCCTCTCTTCAGAGCCAAAAGGGAGTTGCATTCACTTGCCTTGTAGGCTGTGTTTTCACCATCATTCTGACTTTA
AGTTCACTACTTGGGCAAATGTCATCCTGCAATTTGGACTAAACTTCTCTTGGGGATTATCTAATGACGACCTCTGAATTGCTCAATATAGTACTTGTATCTATAGGCACACATGACATGGTTGCAGAGGCAGGTTTCTTTCCGGGAGACGTTTGGTGATGTTAAAGAGAAAGCCAGTGTGGTTACAAAGAAAACAGATG
ATCTATCCGAGGACAATCTAGGGGAATTTAATGATAATCAAGTAATATCCGAATATCAAGGAAATGATGCAGAGCGCCTTGAATGAG

Intron 2 GCTTTGCTAC ... GTATCTATAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	17.02	112.6	0	23
A2	15.98	136.8	0	26
A3	20	160.2	0	40
A4	19.39	66.6	0	16
A5	16.06	73.2	0	14
A6	14.23	1285.6	0	213
A7	14.26	969	0	161
A8	14.83	1121.6	0	195
A9	13.29	1391	0	213
A10	17.42	939.6	0	198

>TRINITY_DN39270_c0_g1_i1 from sample A9 / Example spliced isoform

GGAAGCTCTCCTATATGTAACTCACATAGTCATACTGTAATTAATGGTAGTACAATTGATTTAGCAGGCCTAACTGCACCATAATGAGAATGTAAAAACACAACTGCCATCACATCTTTGTTGCTAGGAAACCCATTTAGCGTCAATTTTGTGAGTGACTCGGTCATGGAAGTGATTAACAAGCCTTTTAAATTGGGGAG
TTTCTATTCAAGAAGTTTGATATTTTGCATCCGAAATCTAAAAGTTTATTGTATAAATTCCATCCGGTATCTCTGCTAGTTCTTCTTCGGATATGGATCCCAAGTTTCTACGAGACAAGAGATTCTGGGCGGCAACCTTCCTCATCACTTGGGCTGCTGCGCTCCAGGCACACATGACATGGTTGCAGAGGCAGGTTTCT
TTCCGGGAGACGTTTGGTGATGTTAAAGAGAAAGCCAGTGTGGTTACAAAGAAAACAGATGATCTATCCGAGGACAATCTAGGGGAATTTAATGATAATCAAGTAATATCCGAATATCAAGGAAATGATGCAGAGCGCCTTGAATGAGGTTTATCTTGCAACAAAGCTATTTCTTGTTTTATCTATCAGAGCTCACTGTC
TGGAATTCATCAGCTTCAATTTTGTTCTTCAGGTAGCAGTTTGATACAGTTTTCCACCTAAGAAACTGATTGTGCTTAAAGAAGTTGAGAAGACAGTGTAGCTACTTTTCTAGGGCATATAAGCTTCCTCACCTTTTCTACACTACACAACTTCACTTTCTTTGAATTTTGTGGCTCTTTTATAGGGTATCTTCCATTAA
ACTAATTTTTCCTGTAGTTTATTTGAAGTTCATTGGAATTTGTTACATTGCTATTGAAATAATGCAACGTTAAAATTTTATAAACTTAAACAAACAAGTACAACATTATAGGCCTTGCCTCAACTAAGCCATGTATTTGCTGCCATAAAGTAACAGAATTAGATGC

>TRINITY_DN39270_c0_g1_i2 from sample A9 / Example unspliced isoform:

ACTTGGGCTGCTGCGCTCCAGgctttgctaccgtgttaaagaaaataaaaaaaaattacagctacagcacacagggagagagacagccacaacagaggtacaggttggaattgaagctagaagcatcctctcttcagagccaaaagggagttgcattcacttgccttgtaggctgtgttttcaccatcattctgacttta
agttcactacttgggcaaatgtcatcctgcaatttggactaaacttctcttggggattatctaatgacgacctctgaattgctcaatatagtacttgtatctatagGCACACATGACATGGTTGCAGAGGCAGGTTTCTTTCCGGGAGACGTTTGGTGATGTTAAAGAGAAAGCCAGTGTGGTTACAAAGAAAACAGATG
ATCTATCCGAGGACAATCTAGGGGAATTTAATGATAATCAAGTAATATCCGAATATCAAGGAAATGATGCAGAGCGCCTTGAATGAG

Intron 3 GTACAGGTTG ... GTATCTATAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	8.51	114.2	1	11.5
A2	7.99	137.6	0	13
A3	10	161.4	0	20
A4	9.7	67.2	0	8
A5	8.03	73.4	0	7
A6	7.11	1296.7	4	106.5
A7	7.18	976	6	81
A8	7.41	1129.7	2	97.5
A9	6.75	1401.5	8	108
A10	8.71	947.2	8	99

>TRINITY_DN45034_c3_g1_i5 from sample A8 / Example spliced isoform

GTACAATTGATTTAGCAGGCCTAACTGCACCATAATGAGAATGTAAAAACACAACTGCCATCACATCTTTGTTGCTAGGAAACCCATTTAGCGTCAATTTTGTGAGTGACTCGGTCATGGAAGTGATTAACAAGCCTTTTAAATTGGGGAGTTTCTATTCAAGAAGTTTGATATTTTGCATCCGAAATCTAAAAGTTTAT
TGTATAAATTCCATCCGGTATCTCTGCTAGTTCTTCTTCGGATATGGATCCCAAGTTTCTACGAGACAAGAGATTCTGGGCGGCAACCTTCCTCATCACTTGGGCTGCTGCGCTCCAGGCACACATGACATGGTTGCAGAGGCAGGTTTCTTTCCGGGAGACGTTTGGTGATGTTAAAGAGAAAGCCAGTGTGGTTACAA
AGAAAACAGATGATCTATCCGAGGACAATCTAGGGGAATTTAATGATAATCAAGTAATATCCGAATATCAAGGAAATGATGCAGAGCGCCTTGAATGAGGTAGCAGTTTGATACAGTTTTCCACCTAAGAAACTGATTGTGCTTAAAGAAGTTGAGAAGACAGTGTAGCTACTTTTCTAGGGCATATAAGCTTCCTCACC
TTTTCTACACTACACAACTTCACATTCTTTGAATTTTGTGGCTCTTTTATAGGGTATCTTCCATTAAACTAATTCTTACTGTAGTTTATTTGAAGTTCATTGGAATTTGTTACATTGCTATTGAAATAATGCAACGTTAAAATTTTATAAACTTAAACAAACAAGTACAACATTATAGGCCTTGCC

>TRINITY_DN45034_c3_g1_i11 from sample A8 / Example unspliced isoform:

GTACAATTGATTTAGCAGGCCTAACTGCACCATAATGAGAATGTAAAAACACAACTGCCATCACATCTTTGTTGCTAGGAAACCCATTTAGCGTCAATTTTTTCTTCTTCGGATATGGATCCCAAGTTTCTACGAGACAAGAGATTCTGGGCGGCAACCTTCCTCATCACTTGGGCTGCTGCGCTCCAGgtacaggttgg
aattgaagctagaagcatcctctcttcagagccaaaagggagttgcattcacttgccttgtaggctgtgttttcaccatcattctgactttaagttcactacttgggcaaatgtcatcctgcaatttggactaaacttctcttggggattatctaatgacgacctctgaattgctcaatatagtacttgtatctatagGC
ACACATGACATGGTTGCAG

Intron 4 GTTTATCTTG ... TGTTCTTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	55.1	73.6	123.4	57.9
A2	58.43	73.2	140.4	66.8
A3	58.68	76.9	153.3	66.7
A4	53.59	44.2	75.3	26.2
A5	49.91	54.6	72.2	36.8
A6	59.31	1049.3	2074.5	1028.1
A7	61.05	776.2	1674.5	779.9
A8	59.55	831.1	1641.5	843.4
A9	60.27	871.4	1771.4	919.9
A10	54.32	677.1	1142.7	479.7

>TRINITY_DN113887_c0_g1_i1 from sample A1 / Example spliced isoform

CATAGTCATACTGTAATTAATGGTAGTACAATTGATTTAGCAGGCCTAACTGCACCATAATGAGAATGTAAAAACACAACTGCCATCACATCTTTGTTGCTAGGAAACCCATTTAGCGTCAATTTTGTGAGTGACTTGGTCATGGAAGTGATTAACAAGCCTTTTAAATTGGGGAGTTTCTATTCAAGAAGTTTGATATT
TTGCATCCGAAATCTAAAAGTTTATTGTATAAATTCCATCCGGTATCTCTGCTAGTTCTTCTTCGGATATGGATCCCAAGTTTCTACGAGACAAGAGATTCTGGGCGGCAACCTTCCTCATCACTTGGGCTGCTGCGCTCCAGGCACACATGACATGGTTGCAGAGGCAGGTTTCTTTCCGGGAGACGTTTGGTGATGTT
AAAGAGAAAGCCAGTGTGGTTACAAAGAAAACAGATGATCTATCCGAGGACAATCTAGGGGAATTTAATGATAATCAAGTAATATCCGAATATCAAGGAAATGATGCAGAGCGCCTTGAATGAGCTTGGAGAGAAGACCCTGAAACTACTGTTGTGGCTGTTAAGGAGCTTTGGGCAGATTTGAAGTTTTGATTTATATC
TTTCAAAGGATTGTAATTTTAAATTTTCATGGAAGCTGCTGTTTTGGCACTTGCTATTTTCTTCTTTGCCGGGACATAATATTTTAGTGTTCATGGTGGGTTTGACTAGCAAATGAAAGGCTAAAAAGAGAGATCCGTCTATCCTCTTTAAGCTGTTATGATCTCAGAACTGGGATACGTAATATTCATGACTGTTATTC
AATAGAAGGCTGTGCAATTGCTTCTGTTCTGTTTTGATGTCACATCGATACATGTACTTAGTGGTTGTGCTGGTGTATCTATTTGGGCATCTGTACTTGGCTGTAAGTGTAATTTCAGATCTGTCATCATTGGTAAACAGTGCTGTTAGTATGTTTGCTGAGCTATTTTTTGCATCAAAGTCAAGTTCTAGGCACTCAAC
ATAACTTCTGACTCCATAACCTTTGGTTAAGGCACCCG

>TRINITY_DN113887_c0_g1_i3 from sample A1 / Example unspliced isoform:

CATAGTCATACTGTAATTAATGGTAGTACAATTGATTTAGCAGGCCTAACTGCACCATAATGAGAATGTAAAAACACAACTGCCATCACATCTTTGTTGCTAGGAAACCCATTTAGCGTCAATTTTGTGAGTGACTTGGTCATGGAAGTGATTAACAAGCCTTTTAAATTGGGGAGTTTCTATTCAAGAAGTTTGATATT
TTGCATCCGAAATCTAAAAGTTTATTGTATAAATTCCATCCGGTATCTCTGCTAGTTCTTCTTCGGATATGGATCCCAAGTTTCTACGAGACAAGAGATTCTGGGCGGCAACCTTCCTCATCACTTGGGCTGCTGCGCTCCAGGCACACATGACATGGTTGCAGAGGCAGGTTTCTTTCCGGGAGACGTTTGGTGATGTT
AAAGAGAAAGCCAGTGTGGTTACAAAGAAAACAGATGATCTATCCGAGGACAATCTAGGGGAATTTAATGATAATCAAGTAATATCCGAATATCAAGGAAATGATGCAGAGCGCCTTGAATGAGgtttatcttgcaacaaagctatttcttgttttatctatcagagctcactgtctggaattcatcagcttcaattttg
ttcttcagCTTGGAGAGAAGACCCTGAAACTACTGTTGTGGCTGTTAAGGAGCTTTGGGCAGATTTGAAGTTTTGATTTATATCTTTCAAAGGATTGTAATTTTAAATTTTCATGGAAGCTGCTGTTTTGGCACTTGCTATTTTCTTCTTTGCCGGGACATAATATTTTAGTGTTCATGGTGGGTTTGACTAGCAAATGA
AAGGCTAAAAAGAGAGATCCGTCTATCCTCTTTAAGCTGTTATGATCTCAGAACTGGGATACGTAATATTCATGACTGTTATTCAATAGAAGGCTGTGCAATTGCTTCTGTTCTGTTTTGATGTCACATCGATACATGTACTTAGTGGTTGTGCTGGTGTATCTATTTGGGCATCTGTACTTGGCTGTAAGTGTAATTTC
AGATCTGTCATCATTGGTAAACAGTGCTGTTAGTATGTTTGCTGAGCTATTTTTTGCATCAAAGTCAAGTTCTAGGCACTCAACATAACTTCTGACTCCATAACCTTTGGTTAAGGCACCCG

Intron 5 GTGAGTGACT ... TCTCTGCTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	81.36	10.5	15.9	46
A2	68.75	15	21	33
A3	65.78	15.7	21.8	30
A4	68.75	5	2	11
A5	77.27	5	3	17
A6	76.34	116.5	35.5	376
A7	71.32	95.7	47.7	238
A8	72.48	100.3	44.6	264
A9	69.78	152.5	61.7	352
A10	75	84	39	252

>TRINITY_DN104974_c0_g1_i1 from sample A3 / Example spliced isoform

AACTCACAGTCATACTCTAATTAATGGTAGTACACTTGATTTAGCAGGCCTAACTGCACCATAATGAGAATGTAAAAACACAACTGCCATCACATCTTTGTTGCTAGGAAACCCATTTAGCGTCAATTTTTTCTTCTTCGGATATGGATCCCAAGTTTCTACGAGACAAGAGATTCTGGGCGGCAACCTTCCTCATCACT
TGGGCTGCTGCGCTCCAGGCACACATGACATGGTTGCAGAGGCAGGTTTCTTTCCGGGAGACGTTTGGTGATGTTAAAGAGAAAGCCAGTGTGGTTACAAAGAAAACAGATGATCTATCCGAGGACAATCTAGGGGAATTTAATGATAATCAAGTAATATCCGAATATCAAGGAAATGATGCAGAGCGCCTTGAATGAG

>TRINITY_DN104974_c0_g1_i4 from sample A3 / Example unspliced isoform:

AACTCACAGTCATACTCTAATTAATGGTAGTACACTTGATTTAGCAGGCCTAACTGCACCATAATGAGAATGTAAAAACACAACTGCCATCACATCTTTGTTGCTAGGAAACCCATTTAGCGTCAATTTTgtgagtgactcggtcatggaagtgattaacaagccttttaaattggggagtttctattcaagaaatttga
tattttgcattcgaaatctaaaagtttattgtataaattccatccggtatctctgctagTTCTTCTTCGGATATGGATCCCAAGTTTCTACGAGACAAGAGATTCTGGGCGGCAACCTTCCTCATCACTTGGGCTGCTGCGCTCCAGGCACACATGACATGGTTGCAGAGGCAGGTTTCTTTCCGGGAGACGTTTGGTGA
TGTTAAAGAGAAAGCCAGTGTGGTTACAAAGAAAACAGATGATCTATCCGAGGACAATCTAGGGGAATTTAATGATAATCAAGTAATATCCGAATATCAAGGAAATGATGCAGAGCGCCTTGAATGAGGTTTATCTTGCAACAAAGCTATTTCTTGTTTTATCTATCAGAGCTCACTGTCTGGAATTCATCAGCTTCAAT
TTTGTTCTTCAGCTTGGAGAGAAGACCCTGAAACTACTGTTGTGGCTGTTAAGGAGCTTTGGGCAGATTTGAAGTTTTGATTTATATCTTTCAAAGGATTGTAATTTTAAATTTTCATGGAAGCTGCTGTTTTGGCACTTGCTATTTTCTTCTTTGCCGGGACATAATATTTTAGTGTTCATGGTGGGTTTGACTAGCAA
ATGAAAGGCTAAAAAGAGAGATCCGTCTATCCTCTTTAAGCTGTTATGATCTCAGAACTGGGATACGTAATATTCATGACTGTTATTCAATAGAAGGCTGTGCTATTGCTTCTGTTCTGTTTTGATGTAACACATCGATACATGTACTTAGTGGTTGTGCTGGTGTATCTATTTGGGCATCTGTACTTGGCTGTAAGTGT
AATTTCAGATCTGTCATCATTGGTAAACAAAAAAA