sp|O23290|RL36A_ARATH ----> Large ribosomal subunit protein eL42z/eL42y

Intron 1 ATTGAAATGT ... CTTGGCTTAC

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	75.28	11	46	21
A2	78.67	8	48	11
A3	78.43	11	62	18
A4	87.5	2	19	9
A5	77.78	7	41	8
A6	86.82	74	653	322
A7	84.27	63	443	232
A8	83.52	89	563	339
A9	86.48	69	557	326
A10	80.14	43	249	98

>TRINITY_DN36163_c0_g1_i2 from sample A7 / Example spliced isoform

CCTACATCCCGAGGTTCATAGAGGTAGTGAAGAGAGGTATTGATTTTCAACGAGGGAGAAGAGGAGCTGCTACAGCGGGAGGATTCAACAGGATCCTTGAGGCGGAGGCTGTTCAGAGGCCGACAATGGTGAACGTACCTAAGACAAAGAAAACTTTCTGCAAGAATAAGGCTTGCAAAAAGCATACATTGCACAAAGTA
ACACAGTACAAGAAAGGAAAGGATAGTCTTTCTGCACAAGGAAAGAGACGTTATGACAGGAAACAGTCTGGTTATGGAGGTCAAACGAAGCCGGTCTTTCACAAGAAGGCTAAAACAACAAAGAAAATTGTATTGAAGCTGCAATGTCAGTCTTGCAAACATTATTCCCAACATCCGATCAAGCGATGCAAGCACTTCGA
AATTGGTGGGGACAAGAAAGGAAAAGGCACATCTCTGTTCTAGGCGCATTCACGTCAGTGGATAGTGATGCCATCTCATCTGTAGAACTGTCAAGACATAAGGGTGTTTTTGGAGATGCAGTTAATTCTTCTGATTCAATACTTTAAATTTTCTTTTTATGAATAGTTTACATTATCTAGAGTCTGGACCCAACTGATAT
TGATTCCTGAAATGGAAAGAAATTAGAATATAACTAAGCTTGTATTTCCTTTGTAGATTGTGATTTTTGTCCTGGACATTTTTGTTTGTTGATTTTTGATGCACGTCTTATCATCTGTTGCTGAGAAAAACATGTGAGATCTCCTTCACAAGTTTTAGTATATGATTAGGGAAAGCTAAAACTCTGCGTCTGTACAAAAC
TTATATTCTCATGCTTAGTTAAAAATCTTTCTATGAAGTTAGAAGCCGAAAAAAATTGAAGATTCTGTTTAATCTGTATGTTTCTAG

>TRINITY_DN36163_c0_g1_i1 from sample A7 / Example unspliced isoform:

CCTACATCCCGAGGTTCATAGAGGTAGTGAAGAGAGGTATTGATTTTCAACGAGGGAGAAGAGGAGCTGCTACAGCGGGAGGATTCAACAGGATCCTTGAGGCGGAGGCTGTTCAGAGGCCGACAATGGTGAACGTACCTAAGACAAAGAAAACTTTCTGCAAGAATAAGGCTTGCAAAAAGCATACATTGCACAAAGTA
ACACAGTACAAGAAAGGAAAGGATAGTCTTTCTGCACAAGGAAAGAGACGTTATGACAGGAAACAGTCTGGTTATGGAGGTCAAACGAAGCCGGTCTTTCACAAGAAGGCTAAAACAACAAAGAAAATTGTATTGAAGCTGCAATGTCAGTCTTGCAAACATTATTCCCAACATCCGATCAAGCGATGCAAGCACTTCGA
AATTGGTGGGGACAAGAAAGGAAAAGGCACATCTCTGTTCTAGGCGCATTCACGTCAGTGGATAGTGATGCCATCTCATCTGTAGAACTGTCAAGACATAAGGGTGTTTTTGGAGATGCAGTTAATTCTTCTGATTCAATACTTTAAATTTTCTTTTTATGAATAGTTTACattgaaatgtctgccaagtagataatctt
gtagcaaattgtcagcgagtgtagaagaccttctgaagctttgaattccaccgttaaattattcatagaatattagacttttgtggatttttcttggcttacATTATCTAGAGTCTGGACCCAACTGATATTGATTCCTGAAATGGAAAGAAATTAGAATATAACTAAGCTTGTATTTCCTTTGTAGATTGTGATTTTTG
TCCTGGACATTTTTGTTTGTTGATTTTTGATGCACGTCTTATCATCTGTTGCTGAGAAAAACATGTGAGATCTCCTTCACAAGTTTTAGTATATGATTAGGGAAAGCTAAAACTCTGCGTCTGTACAAAACTTATATTCTCATGCTTAGTTAAAAATCTTTCTATGAAGTTAGAAGCCGAAAAAAATTGAAGATTCTGTT
TAATCTGTATGTTTCTAG

Intron 2 GTGAACGTAC ... TCTGCACAAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	92.66	5.5	80	48
A2	93.75	6.5	112	77
A3	97.15	2.5	98	65
A4	89.66	4.5	45	24
A5	84.78	6	37	25
A6	90.44	50.5	532	384
A7	93.08	44	657	458
A8	91.87	42.5	531.5	383
A9	92.22	52.5	717	479
A10	93.29	30.5	544	295

>TRINITY_DN93984_c0_g1_i2 from sample A5 / Example spliced isoform

GAGGTAGTGAAGAGAGGTATTGATTTTCAACGAGGGAGAAGAGGAGCTGCTACAGCGGGAGGATTCAACAGGATCCTTGAGGCGGAGGCTGTTCAGAGGCCGACAATGGAAAGAGACGTTATGACAGGAAACAGTCTGGTTATGGAGGTCAAACGAAGCCGGTCTTTCACAAGAAGGTCAGTCAAACTTTGTGAAGGAAT
GATTTAGTTATTATCTAAGAAACGGGATTCATGGGCTAGGGTCCACATGTCCAAAT

>TRINITY_DN93984_c0_g1_i3 from sample A5 / Example unspliced isoform:

GAGGTAGTGAAGAGAGGTATTGATTTTCAACGAGGGAGAAGAGGAGCTGCTACAGCGGGAGGATTCAACAGGATCCTTGAGGCGGAGGCTGTTCAGAGGCCGACAATGgtgaacgtacctaagacaaagaaaactttctgcaagaataaggcttgcaaaaagcatacattgcacaaagtaacacagtacaagaaaggaaa
ggatagtctttctgcacaagGAAAGAGACGTTATGACAGGAAACAGTCTGGTTATGGAGGTCAAACGAAGCCGGTCTTTCACAAGAAGGCTAAAACAACAAAGAAAATTGTATTGAAGCTGCAATGTCAGTCTTGCAAACATTATTCCCAACATCCGATCAAGCGATGCAAGCACTTCGAAATTGGTGGGGACAAGAAAG
GAAAAGGCACATCTCTGTTCTAGGCGCATTCACGTCAGTGGATAGTGATGCCATCTCATCTGTAGAACTGTCAAGACATAAGGGTGTTTTTGGAGATGCAGTTAATTCTTCTGATTCAATACTTTAAATTTTCTTTTTATGAATAGTTTACATTGAAATGTCTGCCAAGTAGATAATCTTGTAGCAAATTGTCAGCGAGT
GTAGAAGACCTTCTGAAGCTTTGAATTCCACCGTTAAATTATTCATAGAATATTAGACTTTTGTGGATTTTTCTTGGCTTACATTATCTAGAGTCTGGACCCAACTGATATTGATTCCTGAAATGGAAAGAAATTAGAATATAACTAAGCTTGTATTTCCTTTGTAGATTGTGATTTTTGTCCTGGACATTTTTGTTTGT
TGATTTTTGATGCACGTCTTATCATCTGTTGCTGAGAAAAACATGTGAGATCTCCTTCACAAGTTTTAGTATATGATTAGGGAAAGCTAAAACTCTGCGTCTGTACAAAACTTATATTCTCATGCTTAGTTAAAAATCTTTCTATGAAGTTAGAAGCCGAAAAAAATT

Intron 3 GTGAACGTAC ... TCACAAGAAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	83.78	12	80	44
A2	84.69	16	112	65
A3	88.16	9	100	34
A4	96.77	1	45	15
A5	79.75	8	37	26
A6	80.13	111	534	361
A7	81.04	120	657	369
A8	78.21	123	532	351
A9	81.6	125	719	390
A10	83.13	77	547	212

>TRINITY_DN36575_c0_g1_i1 from sample A10 / Example spliced isoform

GGCTGTTCAGAGGCCGACAATGGCTAAAACAACAAAGAAAATTGTATTGAAGCTGCAATGTCAGTCTTGCAAACATTATTCCCAACATCCGATCAAGCGATGCAAGCACTTCGAAATTGGTGGGGACAAGAAAGGAAAAGGCACATCTCTGTTCTAGGCGCATTCACGTCAGTGGATAGTGATGCCATCTCATCTGTAGA
ACTGTCAAGACATAAGGGTGTTTTTGGAGATGCAGTTAATTCTTCTGATTCAATACTTTAAATTTTCTTTTTATGAATAGTTTACATTGAAATGTCTGCCAAGTAGATAATCTTGTAGCAAATTGTCAGCGAGTGTAGAAGACCTTCTGAAGCTTTGAATTCCACCGTTAAATTATTCATAGAATATTAGACTTTTGTGG
ATTTTTCTTGGCTTACATTATCTAGAGTCTGGACCCAACTGATATTGATTCCTGAAATGGAAAGAAATTAGAATATAACTAAGCTTGTATTTCCTTTGTAGATTGTGATTTTTGTCCTGGAC

>TRINITY_DN36575_c0_g1_i2 from sample A10 / Example unspliced isoform:

TTTTTATGTACGGACTCTCCTTTCAAACCCTACATCCCGAGGTTCATAGAGGTAGTGAAGAGAGGTATTGATTTTCAACGAGGGAGAAGAGGAGCTGCTACAGCGGGAGGATTCAACAGGATCCTTGAGGCGGAGGCTGTTCAGAGGCCGACAATGgtgaacgtacctaagacaaagaaaactttctgcaagaataaggc
ttgcaaaaagcatacattgcacaaagtaacacagtacaagaaaggaaaggatagtctttctgcacaaggaaagagacgttatgacaggaaacagtctggttatggaggtcaaacgaagccggtctttcacaagaagGCTAAAACAACAAAGAAAATTGTATTGAAGCTGCAATGTCAGTCTTGCAAACATTATTCCCAAC
ATCCGATCAAGCGATGCAAGCACTTCGAAATTGGTGGGGACAAGAAAGGAAAAGGCACATCTCTGTTCTAGGCGCATTCACGTCAGTGGATAGTGATGCCATCTCATCTGTAGAACTGTCAAGACATAAGGGTGTTTTTGGAGATGCAGTTAATTCTTCTGATTCAATACTTTAAATTTTCTTTTTATGAATAGTTTACA
TTGAAATGTCTGCCAAGTAGATAATCTTGTAGCAAATTGTCAGCGAGTGTAGAAGACCTTCTGAAGCTTTGAATTCCACCGTTAAATTATTCATAGAATATTAGACTTTTGTGGATTTTTCTTGGCTTACATTATCTAGAGTCTGGACCCAACTGATATTGATTCCTGAAATGGAAAGAAATTAGAATATAACTAAGCTT
GTATTTCCTTTGTAGATTGTGATTTTTGTCCTGGAC