sp|Q9LEY9|NHP2_ARATH ----> H/ACA ribonucleoprotein complex subunit 2-like protein

Intron 1 GTATATGGTA ... TTTTCTGTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	20	92	28	18
A2	20.8	139	46	27
A3	19.24	149	44	27
A4	21.08	73	28	11
A5	26.8	71	34	18
A6	19.53	1312	339	298
A7	21.48	1084	370	223
A8	18.26	1003	252	196
A9	20.03	1058	322	208
A10	21.2	879	282	191

>TRINITY_DN101821_c0_g1_i2 from sample A5 / Example spliced isoform

CATCTATCAAACATGGAATAATTTTCATGTTTCATGACTCTTATAACTTGATCGACTGCCCTTAATTGTGAACCGCCTAGGAATGGATGAGGAGAGTTTGCTCTTGGTAATAGTGGCATAAGAATTAACCTAATTTATAGCAAGAATATGGATTATATCTAGGAATATTACTTCGGGGGTGATATTGCTGTCACCTGTGT
ACAACAACTAGGTACCTGGTTATTGAATCCGCCCCTCCTCTCTTACGCGGACTGTTGAACTGTGGTACTGTTCTATAGAGCCGAGGTTTTCATTGACGTATCTGGTAATAAAAATGGGGAGCGATGCAGAGATGGAGAAGGAGAAAGCGTCGAAGGAGAAGCGGAAGATGCTGATGTTGTCGCCCATTGCTCGTCCTCTC
GCAGGGAAGAAGCTATGCAAGAGAGTCCTCAAGCTCGTTCGACGAGCTTCGGAGGCTAAGTGTTTGAAGCGCGGAGTCAAAGAAGTGGTGAAGTCCATCAGGCGGGGAAAGAAGGGATTTTGTGTTATTGCAGGGAACATCTCACCAATTGATGTAATTACACATGTACCTATTCTGTGTGAAGAAGCTGACATTCCATA
TATTTATGTTCCATCGAAAGAGGATCTTGCGGGTGCAGGAGCCACTAAGAGGCCAACATGTTGTGTTTTAGTGCTTACCAGTCCTACTAAAGGTAGCCTTAGTGAGGAGGAAGATAAAAAATTGAAAGAGGCCTACGATGAAGTGGTGAAGGAAGTGCGGGAACTGGCGACATCTTTCTTCTAACAAAAAGTGGTGCACT
AATGGTTTTATCAGTTTCATTTGTAAATTACTCTGGCGCTGTTCAATTTTGAAGTGGAACTGACGGTAATATAAGTAGCTAGTTGGCATGTGAAGTGCTCGGTTTTAGAGGTGCTGTGAAATTTTTGCGAGTGTTCTGAGCACCAAAGGGTAATTGTGTACTATAAATTTTGCTATGCTTTGCAACACTTGGGTTGCCTA
GTTTGTCAAATACAGTTGAAGTAATGAAGTGAATTTTTGTGATTGGTATCCTTATCCTTTTTTTACATGGGGCAGTTATTTAACGATGAATGCTTCTAATTGTAGTTAACTAATAAAATAGTTTGTAAATCTTTCTAAACTCCGTTCTTTTTGTTCTAAAGCATTTGATGACATCTCATCATCTC

>TRINITY_DN101821_c0_g1_i5 from sample A5 / Example unspliced isoform:

CATCTATCAAACATGGAATAATTTTCATGTTTCATGACTCTTATAACTTGATCGACTGCCCTTAATTGTGAACCGCCTAGGAATGGATGAGGAGAGTTTGCTCTTGGTAATAGTGGCATAAGAATTAACCTAATTTATAGCAAGAATATGGATTATATCTAGGAATATTACTTCGGGGGTGATATTGCTGTCACCTGTGT
ACAACAACTAGGTACCTGGTTATTGAATCCGCCCCTCCTCTCTTACGCGGACTGTTGAACTGTGGTACTGTTCTATAGAGCCGAGGTTTTCATTGACGTATCTGGTAATAAAAATGGGGAGCGATGCAGAGATGGAGAAGGAGAAAGCGTCGAAGGAGAAGCGGAAGATGCTGATGTTGTCGCCCATTGCTCGTCCTCTC
GCAGGGAAGAAGCTATGCAAGAGAGTCCTCAAGCTCGTTCGACGAGCTTCGGAGGCTAAGTGTTTGAAGCGCGGAGTCAAAGAAGTGGTGAAGTCCATCAGGCGGGGAAAGAAGGGATTTTGTGTTATTGCAGGGAACATCTCACCAATTGATGTAATTACACATGTACCTATTCTGTGTGAAGAAGCTGACATTCCATA
TATTTATGTTCCATCGAAAGAGgtatatggtatgaacatttatgatgccttatgtatttttcttcttttattttccatatgataataattttggtgtattttttctgtagGATCTTGCGGGTGCAGGAGCCACTAAGAGGCCAACATGTTGTGTTTTAGTGCTTACCAGTCCTACTAAAGGTAGCCTTAGTGAGGAGGAA
GATAAAAAATTGAAAGAGGCCTACGATGAAGTGGTGAAGGAAGTGCGGGAACTGGCGACATCTTTCTTCTAACAAAAAGTGGTGCACTAATGGTTTTATCAGTTTCATTTGTAAATTACTCTGGCGCTGTTCAATTTTGAAGTGGAACTGACGGTAATATAAGTAGCTAGTTGGCATGTGAAGTGCTCGGTTTTAGAGGT
GCTGTGAAATTTTTGCGAGTGTTCTGAGCACCAAAGGGTAATTGTGTACTATAAATTTTGCTATGCTTTGCAACACTTGGGTTGCCTAGTTTGTCAAATACAGTTGAAGTAATGAAGTGAATTTTTGTGATTGGTATCCTTATCCTTTTTTTACATGGGGCAGTTATTTAACGATGAATGCTTCTAATTGTAGTTAACTA
ATAAAATAGTTTGTAAATCTTTCTAAACTCCGTTCTTTTTGTTCTAAAGCATTTGATGACATCTCATCATCTC

Intron 2 GTTTAATGCC ... TTGTTTTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	13.65	76.8	12	8.2
A2	18.86	90.4	21	8
A3	21.78	97.4	27	12.8
A4	19.93	60.6	15	9.2
A5	9.83	55.8	6	3.2
A6	13.21	781	118	51.6
A7	12.65	649.8	93	56.6
A8	13.92	518.4	83	38.8
A9	14.45	662.8	111	52.6
A10	14.01	538.4	87	43.8

>TRINITY_DN110133_c0_g1_i3 from sample A2 / Example spliced isoform

TTTTCATGTTTCATGACTCTTATAACTTGATCGACTGCCCTTAATTGTGAACCGCCTAGGAATGGATGAGGAGAGTTTGCTCTTGGTAATAGTGGCATAAGAATTAACCTAATTTATAGCAAGAATATGGATTATATCTAGGAATATTACTTCGGGGGTGATATTGCTGTCACCTGTGTACAACAACTAGGTACCTGGTT
ATTGAATCCGCCCCTCCTCTCTTACGCGGACTGTTGAACTGTGGTACTGTTCTATAGAGCCGAGGTTTTCATTGACGTATCTGGTAATAAAAATGGGGAGCGATGCAGAGATGGAGAAGGAGAAAGCGTCGAAGGAGAAGCGGAAGATGCTGATGTTGTCGCCCATTGCTCGTCCTCTCGCAGGGAAGAAGCTATGCAAG
AGAGTCCTCAAGCTCGTTCGACGAGCTTCGGAGGCTAAGTGTTTGAAGCGCGGAGTCAAAGAAGTGGTGAAGTCCATCAGGCGGGGAAAGAAGGGATTTTGTGTTATTGCAGGGAACATCTCACCAATTGATGTAATTACACATGTACCTATTCTGTGTGAAGAAGCTGACATTCCATATATTTATGTTCCATCGAAAGA
GGTATATGGTATGAACATTTATGATGCCTTATGTATTTTTCTTCTTTTATTTTCCATATGATAATAATTTTGGTGTATTTTTTCTGTAGGATCTTGCGG

>TRINITY_DN110133_c0_g1_i1 from sample A2 / Example unspliced isoform:

TTTTCATGTTTCATGACTCTTATAACTTGATCGACTGCCCTTAATTGTGAACCGCCTAGGAATGGATGAGGAGAGTTTGCTCTTGGTAATAGTGGCATAAGAATTAACCTAATTTATAGCAAGAATATGGATTATATCTAGGAATATTACTTCGGGGGTGATATTGCTGTCACCTGTGTACAACAACTAGGTACCTGGTT
ATTGAATCCGCCCCTCCTCTCTTACGCGGACTGTTGAACTGTGGTACTGTTCTATAGAGCCGAGGTTTTCATTGACGTATCTGGTAATAAAAATGGGGAGCGATGCAGAGATGGAGAAGGAGAAAGCGTCGAAGGAGAAGCGGAAGATGCTGATGTTGTCGCCCATTGCTCGTCCTCTCGCAGGGAAGAAGCTATGCAAG
AGAGTCCTCAAGCTCGTTCGACGAGgtttaatgccaccctgtttatcatttcatttttcttcattttacacacattccatttttgtttttggtgtcgatggggttcattgttttcagCTTCGGAGGCTAAGTGTTTGAAGCGCGGAGTCAAAGAAGTGGTGAAGTCCATCAGGCGGGGAAAGAAGGGATTTTGTGTTATT
GCAGGGAACATCTCACCAATTGATGTAATTACACATGTACCTATTCTGTGTGAAGAAGCTGACATTCCATATATTTATGTTCCATCGAAAGAGGATCTTGCGGGTGCAGGAGCCACTAAGAGGCCAACATGTTGTGTTTTAGTGCTTACAAGTCCTACTAAAGGTAGCCTCAGTGAGGAGGAAGATAAAAAATTGAAAGA
GGCCTACGATGAAGTGGTGAAGGAAGTGCGGGAACTGGCGACATCTTTCTTCTAACAAAAAGTGGTGCACTAATGGTTTTATCAGTTTCATTTGTAAATTACTCTGGCGCTGTTCAATTTTGAAGTGGAACTGACGGTAATATAAGTAGCTAGTTGGCATGTGAAGTGCTCGGTTTTAGAGGTGCTGTGAAATTTTTGCG
AGTGTTCTGAGCACCAAAGGGTAATTGTGTACTATAAATTTTGCTATGCTTTGCAACACTTGGGTTGCCTAGTTTGTCAAATACAGTTGAAGTAATGAAGTGAATTTTTGTGATTGGTATCCTTATCCTTTTTTTACATGGGGCAGTTATTTAACGATGAATGCTTCTAATTGTAGTTAACTAATAAAATAGTTTGTAAA
TCTTTCTAAACTCCGTTCTTTTTGTTCTAAAGCATTTGATGACATCTCATCATCTCTGTTTGCATTCGATGCTATTATGCAT

Intron 3 GTTAAATGTC ... TTGTTTTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	13.98	80	13	0
A2	13.21	92	14	2
A3	15.7	102	19	5
A4	14.67	64	11	6
A5	15.71	59	11	0
A6	8.02	814	71	5
A7	5.64	686	41	5
A8	6.9	540	40	2
A9	5.86	691	43	4
A10	6.5	561	39	5

>TRINITY_DN98048_c0_g1_i3 from sample A4 / Example spliced isoform

TCACTTGGCTCAAGTCACAATAAAAATAGGGTTTTATGAGGGTTTTGGAGCGAGCGGCGGACGGGTATTAAGAAGCGTAGCAGTGGCCGAACACACTCCAGTTGCGGCAAATATCTCTAGCGAGATCTGAAAGTGTTGTTATGCGCGTGTATATCGTTTGCAGAGACTGTAAAAGTATTCATTGACTTATCTGATAATAA
AAATGGGGAGCGATGTAGAGATGGAGCAGGAGAAAACGTCGAAGGAGAAGCGGAAGATGTTGATGTTGTCGCCCATTGCTCGTCCTCTCGCAGGGAAGAAGCTCTGCAAGAGAACCCTCAAGCTCGTTCGACGAGCTTCGGAGGCTAAGTGTTTGAAGCGCGGAGTCAAAGAAGTGGTGAAGTCCATCAGGCGGGGAAAT
AAGGGATTTTGTGTTATTGCTGGGAACATCTCACCAATTGATGTAATTACACATGTACCTATTCTGTGTGAAGAAGCTGACATTCCATATATTTATGTTCCATCGAAAGAGGATCTTGCGGGTGCAGGAGCCACTAAGAGGCCAACATGTTGTGTTTTAGTGCTTACAAGTCCTACTAAAGGTAGCCTCAGTGAGGAGGA
AGATAAAAAATTGAAAGAGGACTACAATGAAGTGGTGAAGGAAGTGCGGGAACTGGCGACGTCTTTCTTCTAACAAAAATCGGTGCACTAATGGTTTTATCGGTTTCATTTGTAAATTACTCTGGCGCTGTTCAATTTGAAGTGTAACTGATGGTAATATTAGTAGTTAGTTGGCATGTGAAGTGCTCCC

>TRINITY_DN98048_c0_g1_i4 from sample A4 / Example unspliced isoform:

TCACTTGGCTCAAGTCACAATAAAAATAGGGTTTTATGAGGGTTTTGGAGCGAGCGGCGGACGGGTATTAAGAAGCGTAGCAGTGGCCGAACACACTCCAGTTGCGGCAAATATCTCTAGCGAGATCTGAAAGTGTTGTTATGCGCGTGTATATCGTTTGCAGAGACTGTAAAAGTATTCATTGACTTATCTGATAATAA
AAATGGGGAGCGATGTAGAGATGGAGCAGGAGAAAACGTCGAAGGAGAAGCGGAAGATGTTGATGTTGTCGCCCATTGCTCGTCCTCTCGCAGGGAAGAAGCTCTGCAAGAGAACCCTCAAGCTCGTTCGACGAGgttaaatgtctccctgtttatcatttcctttttttttcattttacacacattccatttttatttg
tgttgatggggttcattgttttcagCTTCGGAGGCTAAGTGTTTGAAGCGCGGAGTCAAAGAAGTGGTGAAGTCCATCAGGCGGGGAAATAAGGGGTATTCTTCTTATACACACTTTTTCTAGTCTACCATTGCTTTTGAACTGATATTCCTTTATTGGGTCGTTTTTCAT