sp|O04331|PHB3_ARATH ----> Prohibitin-3, mitochondrial

Intron 1 GTGATGTACA ... CGTTCACCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	54.55	10	13	11
A2	51.85	13	21	7
A3	41.82	16	15	8
A4	60	3	4	5
A5	100	0	5	9
A6	48.53	70	63	69
A7	35.11	85	42	50
A8	30.98	137	50	73
A9	33.33	109	40	69
A10	31.48	74	32	36

>TRINITY_DN43558_c0_g1_i8 from sample A7 / Example spliced isoform

GTTATTCCGAACAATTGGTTATTCCAAGCAATTCGCGTCTCTCTGAAGCATGGACCATTTATTGCAGTGGACGAAGAGGGGTCGGCCGGATTTTTAAAATTCATATAGTTGGTGTTGGCCGAAGCAGACGCCATCCCTAGAAGAACTGGTAATGACGAGACAAAGCGGGGCTGAGAAGGTGAGGCGGGGGTCACGGCTGT
GCTAGTTGAGCATAGGAGAATTTAGGGCTTGTCAAATACGACATTCTGCATCAAATATGTTTATGAATATATGATCATATGCAAAGCGGATACTGAGAATTTATAGTATATCAAATGCGTTTTCAATGCATATACTGAGAATTCACAGTATATCAAATGCGTTTATGAAAATATGTTCATATGGCAAGCAGATGTTTCAT
AATATATGGAAAATTAAAAAGATGCAAACGAGGTTTAATGCGTACGGAGTCTAGGCAACAAAAGATGCTTGTTACATAATGAAGAATTGTTCCGAGGATTTAAGTAACTTTTGAATTTTATTGCAATAGCTTATATGCTGCTTATAAGCTTGTCGATAGGATGCTGGTTTATTGATGAGATTAAAGAGTGTTAAGTTGCC
TACCATATATTAAATTCAAATTAAAAGGTGGAACAGTGATTTTATTGACGTTAAGATCAGTATCATCACCATTGAGATTAGCAAATTTTAAGTAACATTTATTTTCTTAACCGCTATTTCCA

>TRINITY_DN43558_c0_g1_i3 from sample A7 / Example unspliced isoform:

CGAAGAGGGGTCGGCCGGATTTTAAAATTCATATAGTTGGTGTTGGCCGAAGCAGACGCCATCCCTAGAAGAACTGGTAATGACGAGACAAAGCGGGGCTGAGAAGGTGAGgtgatgtacaggaacgctttgtttttttaagtttttcgatgacttgttgcatcatttgaattctttttacggctttctgatacgccatg
ttaacttgctcaagcttttctgtaaattgtgcttgcatttggtcgtgcttaagatgtatcgtttcatttctgaaataaaaccttgacaatcgagcctgacctaagccgattcctattggcgttcaccagGCGGGGGTCACGGCTGTGCTAGTTGAGCATAGGAGAATTTAGGGCTTGTCAAATACGACATTCTGCATCAA
ATATGTTTATGAATATATGATCATATGCAAAGCGGATACTGAGAATTTATAGTATATCAAATGCGTTTTCAATGCATATACTGAGAATTCACAGTATATCAAATGCGTTTATGAAAATATGTTCATATGGCAAGCAGATGTTTCATAATATATGGAAAATTAAAAAGATGCAAACGAGGTTTAATGCGTACGGAGTCTAG
GCAACAAAAGATGCTTGTTACATAATGAAGAATTGTTCCGAGGATTTAAGTAACTTTTGAATTTTATTGCAATAGCTTATATGCTGCTTATAAGCTTGTCGATAGGATGCTGGTTTATTGATGAGATTAAAGAGTGTTAAGTTGCCTACCATATATTAAATTCAAATTAAAAGGTGGAACAGTGATTTTATTGACGTTAA
GATCAGTATCATCACCATTGAGATTAGCAAATTTTAAGTAACATTTATTTTCTTAACCGCTATTTCCA

Intron 2 GTGAGGTGAT ... CGTTCACCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	54.68	11	15.6	11
A2	55.41	11.3	21	7
A3	46.53	15	18.1	8
A4	56.76	5	8.3	5
A5	77.38	2	4.7	9
A6	48.86	73	70.7	69
A7	37.36	89	56.3	50
A8	33.65	155.3	85	73
A9	35.06	113	53.1	69
A10	32.04	84	43.4	36

>TRINITY_DN110721_c0_g1_i4 from sample A2 / Example spliced isoform

AAACAGATAAAAAACACAATACTAAACAACCTAAAAAACAACTCCCAGTAAGGGCTCTTGGAAGCGTAGTAGAAGCCTCGGCTTATTTAACCGGAGAAGTCATACATTTGATACGAGGTTCTGGGTTTTGTATAAAGCATAAGATTGCAGTACGCGAGAAAAGAACAAGATGTCTGTACAAAGAGCGGTGTCCAGATTAG
CAGCGTTAGCCGTGAGCGTTGGAACGGGAGTCGGCCTCCTGAACGCGTCGCTATATACCGTGGATGGAGGGCACAGAGCGGTCATTTTCGACAGATTCAGGGGCGTCCTGGACACCACCGTGGGGGAAGGCACCCACTTCCTCATCCCAGGGCTTCAGAAGCCCTACATATTCGAGATCAGAACGAAGCCTCGCTCCATC
AGCACCATCACTGGCACCAAGGACCTCCAGATGGTGAACATCTCCCTGAGGATTCTTTCCAGGCCCAATGAGGACACGTTGCCCGACATATTTCAGAGGCTCGGCCTCGACTACGATGAGAGGGTGTTGCCTTCCATTGGCAACGAGGTCTTGAAGGCCGTCGTGGCGCAGTTCAACGCGGACCAGCTCTTGACTGATAG
GCCGGCCGTGTCTGCGCTGGTCAGGGAGGCTCTGCTGCGTCGCGCCAAGGATTTTAACCTCCTGCTGGACGACGTGGCCATCACCCATCTTTCCTATGGCCCCGAGTTCTCGAAAGCAGTCGAGCAGAAGCAGGTGGCGCAGCAGGAAGCCGAGAGGTCGAAGTTCGTGGTTGCCAAGGCCGAGCAAGAGAGGAGGGCGG
CCGTTGTTAGAGCAGAGGGGGAGAGCGAGGCTGCTAAGCTTATTTCCCTGGCCACGTCTGCTGCGGGACTAGGTCTAATCGAGCTCAGGCGCATCGAGGCTGCCAAGGAAATTGCTTCCACTCTTTCTCGGAGCTCTAATGTGGTCTACTTGCCCTCTGGCAACAACATGCTCTTGGGCTTGAACCCTTCACGCTGAACA
AGAGTGGACGAAGAGGGGTCGGCCGGATTTTTAAAATTCATATAGTTGGTGTTGGCCGAAGCAGATGCCATCCCTAGAAGAACTGGTAATGACGAGACAAAGCGGGGCTGAGAAGGCGGGGGTCACGGCTGTGCTAGTTGAGCATAGGAGAATTTAGGGCTTGTCAAATACGACATTCTGCATCAAATATGTTTATGAAT
ATATGATCATATGCAAAGCGGATACTGAGAATTTATAGTATATCAAATGCGTTTTCAATGCATATACTGAGAATTCACAGTATATCAAATGCGTTTATGAAAATATGTTCATATGGCAAGCAGATGTTTCATAATATATGGAAAATTAAAAAGATGCAAACGAGGTTTAATGCGTACGGAGTCTAGGCAACAAAAGATGC
TTGTTACATAATGAAGAATTGTTCCGAGGATTTAAGTAACTTTTGAATTTTATTGCAATAGCTTATATGCTGCTTATAAGCTTGTCGATAGGATGCTGGTA

>TRINITY_DN110721_c0_g1_i3 from sample A2 / Example unspliced isoform:

AAACAGATAAAAAACACAATACTAAACAACCTAAAAAACAACTCCCAGTAAGGGCTCTTGGAAGCGTAGTAGAAGCCTCGGCTTATTTAACCGGAGAAGTCATACATTTGATACGAGGTTCTGGGTTTTGTATAAAGCATAAGATTGCAGTACGCGAGAAAAGAACAAGATGTCTGTACAAAGAGCGGTGTCCAGATTAG
CAGCGTTAGCCGTGAGCGTTGGAACGGGAGTCGGCCTCCTGAACGCGTCGCTATATACCGTGGATGGAGGGCACAGAGCGGTCATTTTCGACAGATTCAGGGGCGTCCTGGACACCACCGTGGGGGAAGGCACCCACTTCCTCATCCCAGGGCTTCAGAAGCCCTACATATTCGAGATCAGAACGAAGCCTCGCTCCATC
AGCACCATCACTGGCACCAAGGACCTCCAGATGGTGAACATCTCCCTGAGGATTCTTTCCAGGCCCAATGAGGACACGTTGCCCGACATATTTCAGAGGCTCGGCCTCGACTACGATGAGAGGGTGTTGCCTTCCATTGGCAACGAGGTCTTGAAGGCCGTCGTGGCGCAGTTCAACGCGGACCAGCTCTTGACTGATAG
GCCGGCCGTGTCTGCGCTGGTCAGGGAGGCTCTGCTGCGTCGCGCCAAGGATTTTAACCTCCTGCTGGACGACGTGGCCATCACCCATCTTTCCTATGGCCCCGAGTTCTCGAAAGCAGTCGAGCAGAAGCAGGTGGCGCAGCAGGAAGCCGAGAGGTCGAAGTTCGTGGTTGCCAAGGCCGAGCAAGAGAGGAGGGCGG
CCGTTGTTAGAGCAGAGGGGGAGAGCGAGGCTGCTAAGCTTATTTCCCTGGCCACGTCTGCTGCGGGACTAGGTCTAATCGAGCTCAGGCGCATCGAGGCTGCCAAGGAAATTGCTTCCACTCTTTCTCGGAGCTCTAATGTGGTCTACTTGCCCTCTGGCAACAACATGCTCTTGGGCTTGAACCCTTCACGCTGAACA
AGAGTGGACGAAGAGGGGTCGGCCGGATTTTTAAAATTCATATAGTTGGTGTTGGCCGAAGCAGATGCCATCCCTAGAAGAACTGGTAATGACGAGACAAAGCGGGGCTGAGAAGgtgaggtgatgtacaggaacgctttgtttttttaagtttttcgacgacttgttgcatcatttgaattctttttacggctttctga
tacgccatgttaacttgctcaagcttttctgtaaattgtgcttgcatttggtcgtgcttaagatgtatcgtttcatttctgaaataaaaccttgacaatcgagcctgacctaagccgattcctattggcgttcaccagGCGGGGGTCACGGCTGTGCTAGTTGAGCATAGGAGAATTTAGGGCTTGTCAAATACGACATT
CTGCATCAAATATGTTTATGAATATATGATCATATGCAAAGCGGATACTGAGAATTTATAGTATATCAAATGCGTTTTCAATGCATATACTGAGAATTCACAGTATATCAAATGCGTTTATGAAAATATGTTCATATGGCAAGCAGATGTTTCATAATATATGGAAAATTAAAAAGATGCAAACGAGGTTTAATGCGTAC
GGAGTCTAGGCAACAAAAGATGCTTGTTACATAATGAAGAATTGTTCCGAGGATTTAAGTAACTTTTGAATTTTATTGCAATAGCTTATATGCTGCTTATAAGCTTGTCGATAGGATGCTGGTA

Intron 3 GTGAGGTGAT ... CGTGCTTAAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	69.64	7.5	16	18
A2	65.85	7	21	6
A3	78.2	5	18.5	17
A4	74.05	3.5	9	8
A5	59.03	7	5	15
A6	69.72	26	73	42
A7	75.76	16	58.5	35
A8	68.38	37.5	91	51
A9	69.08	26.5	55.5	58
A10	58.31	30	47	33

>TRINITY_DN41050_c1_g1_i2 from sample A6 / Example spliced isoform

TGGACGAAGAGGGGTCGGCCGGATTTTAAAATTCATATAGTTGGTGTTGGCCGAAGCAGACGCCATCCCTAGAAGAACTGGTAATGACGAGACAAAGCGGGGCTGAGAAGATGTATCGTTTCATTTCTGAAATAAAACCTTGACAATCGAGCCTGACCTAAGCCGATTCCTATTGGCGTTCACCAGGCGGGGGTCACGGC
TGTGCTAGTTGAGCATAGGAGAATTTAGGGCTTGTCAAATACGACATTCTGCATCAAATATGTTTATGAATATATGATCATATGCAAAGCGGATACTGAGAATTTATAGTATATCAAATGCGTTTTCAATGCATATACTGAGAATTCACAGTATATCAAATGCGTTTATGAAAATATGTTCATATGGCAAGCAGATGTTT
CATAATATATGGAAAATTAAAAAGATGCAAACGAGGTTTAATGCGTACGGAGTCTAGGCAACAAAAGATGCTTGTTACATAATGAAGAATTGTTCCGAGGATTTAAGTAACTTTTGAATTTTATTGCAATAGCTTATATGCTGCTTATAAGCTTGTCGATAGGATGCTGGTTTATTGATGAGATTAAAGAGTGTTAAGTT
GCCTACCATATATTAAATTCAAATTAAAAGGTGGAACAGTGATTTTATTGACGTTAAGATCAGTATCATCACCATTGAGATTAGCAAATTTTAAGTAACATTTATTTTCTTAACCGCTATTTCCAATAGTAAG

>TRINITY_DN41050_c1_g1_i5 from sample A6 / Example unspliced isoform:

CCCTCACAAGGCCAATGCTACGAATGTGAAGTCTGGGACAATTATACCTAAATACAAGTGGAAGCAAGATTGAAACTGATAAAACAGATAAAAAACACAATACTAAACAACCTAAAAAAACAACTCCCAGTAAGGGCTCTTGGAAGCGTAGTAGAAGCCTCGGCTTATTTAACCGGAGAAGTCATACATTTGATACGAGG
TTCTGGGTTTTGTATAAAGCATAAGATTGCAGTACGCGAGAAAAGAACAAGATGTCTGTACAAAGAGCGGTGTCCAGATTAGCGGCGTTAGCCGTGAGCGTTGGAACAGGAGTCGGCCTCCTGAACGCGTCGCTATATACCGTGGATGGAGGGCACAGAGCGGTCATTTTCGACAGATTCAGGGGCGTCCTGGACACCAC
CGTGGGGGAAGGCACCCACTTCCTCATCCCAGGGCTTCAGAAGCCCTACATATTCGAGATCAGAACGAAGCCTCGCTCCATCAGCACCATCACTGGCACCAAGGACCTCCAGATGGTGAACATCTCCCTGAGGATTCTTTCCAGGCCCAATGAGGACACGTTGCCCGACATATTTCAGAGGCTCGGCCTCGACTACGATG
AGAGGGTGTTGCCTTCCATTGGCAACGAGGTCTTGAAGGCCGTCGTGGCGCAGTTCAACGCGGACCAGCTCTTGACTGATAGGCCGGCCGTGTCTGCGCTGGTCAGGGAGGCTCTGCTGCGTCGCGCCAAGGATTTTAACCTCCTGCTGGACGACGTGGCCATCACCCATCTTTCCTATGGCCCCGAGTTCTCGAAAGCA
GTCGAGCAGAAGCAGGTGGCGCAGCAGGAAGCCGAGAGGTCGAAGTTCGTGGTTGCCAAGGCTGAGCAAGAGAGGAGGGCGGCCGTTGTTAGAGCAGAGGGGGAGAGCGAGGCTGCTAAGCTTATTTCCCTGGCCACGTCTGCTGCGGGACTAGGTCTAATCGAGCTCAGGCGCATCGAGGCTGCCAAGGAAATTGCTTC
CACTCTTTCTCGGAGCTCTAATGTGGTCTACTTGCCCTCTGGCAACAACATGCTCTTGGGCTTGAACCCTTCACGCTGAACAAGAGTGGACGAAGAGGGGTCGGCCGGATTTTAAAATTCATATAGTTGGTGTTGGCCGAAGCAGACGCCATCCCTAGAAGAACTGGTAATGACGAGACAAAGCGGGGCTGAGAAGgtga
ggtgatgtacaggaacgctttgtttttttaagtttttcgatgacttgttgcatcatttgaattctttttacggctttctgatacgccatgttaactttctcaagcttttctgtaaattgtgcttgcatttggtcgtgcttaagATGTATCGTTTCATTTCTGAAATAAAACCTTGACAATCGAGCCTGACCTAAGCCGAT
TCCTATTGGCGTTCACCAGGCGGGGGTCACGGCTGTGCTAGTTGAGCATAGGAGAATTTAGGGCTTGTCAAATACGACATTCTGCATCAAATATGTTTATGAATATATGATCATATGCAAAGCGGATACTGAGAATTTATAGTATATCAAATGCGTTTTCAATGCATATACTGAGAATTCACAGTATATCAAATGCGTTT
ATGAAAATATGTTCATATGGCAAGCAGATGTTTCATAATATATGGAAAATTAAAAAGATGCAAACGAGGTTTAATGCGTACGGAGTCTAGGCAACAAAAGATGCTTGTTACATAATGAAGAATTGTTCCGAGGATTTAAGTAACTTTTGAATTTTATTGCAATAGCTTATATGCTGCTTATAAGCTTGTCGATAGGATGC
TGGTTTATTGATGAGATTAAAGAGTGTTAAGTTGCCTACCATATATTAAATTCAAATTAAAAGGTGGAACAGTGATTTTATTGACGTTAAGATCAGTATCATCACCATTGAGATTAGCAAATTTTAAGTAACATTTATTTTCTTAACCGCTATTTCCAATAGTAAG