sp|Q8H0W0|LPA3_ARATH ----> Protein LPA3

Intron 1 GTATCTTTCA ... ACCATTTTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	100	0	1	1
A2	64.29	2.3	4	4
A3	100	0	1	0
A4	0	2	0	0
A5	-1	0	0	0
A6	25	9	2	4
A7	44	7	4	7
A8	33.27	11	4	7
A9	31.3	14.3	6	7
A10	0	2	0	0

>TRINITY_DN40314_c0_g1_i2 from sample A9 / Example spliced isoform

GTGGTGGTCTATTCATTATTTATGCTCCAGAGATTATGAAAAATGCAGATTACAAAATTACCGAAGTCCTCAGAGACATTACCCAGTTTATCATGCCTGCAAAACTTTTGTATAGGGGACTTTTCTCTGCCTTCTCAGCAGGCTAATATGCGAATATTTAATTCAGATACCCAAATTTTCTGCCGCAAACATGGGAATCA
GAGAATTCCAAAGCGGCCAATTTCTTTTGGATTCCATGATTCCAACCATTTGGTCCCTGGTATCCGGAGGCTTAGAGCAAGCTCTGACAGTCATACAAGCACATCTACTGAGATTGATGTGGCATTCCCTGGAGACTACAGTGAACTGCTTCAGCAGGTAAAAGTGGCAACACAATCAGCATTGATGGATTCAAAGCATT
TGCTGGAGATTGAATTTCCAACTGCTGGGCTTGACTCTGTTTCAGGTGATGCTGAAGGAGGGATAGAGATGAATTCTAGCATGACATTGATTCGAGAATTTTGTGCACGTTTTCTGAAACCAGAAGAAGCCACACGCACACGGATAAGATGCTTGTTGTGGAAGAGCTTTACAAGGATGCAGTTGTGCACACAGATCGCA
AACTGATTATTTTCAATGGAGAACTAGACCGAATAAGGAGTGGTTATTACCCTCCATTCTTCTATCCAAAGATTGGAGCCCTTGCAAGGAACTTCTTGCCCAAGCTTGAGACTGCATATTATATACATAATTTCAAAGGCCGTGCTGGAGGAACACTTTTCAGGTCATATCCAGGACCTTGGCAAGTACTGAGAAAAGTT
GGAGACAGGCACGTGTGTATACATCAACAAGAGACCATGCCATCTCTGAAAGAAGTTGCACTAAGCATTCTACCGTCTGCTTGATATTTCAATTCTACTTAAGTGGCTAAGAAACTTAATTACAGTGTTTCGTGGGAGAATGAGGTATATATGTTGTGGGGTATTTCAAAATGGGAATTATAACCTGGTGTTCTTTATTT
TGCTGTCTGTCTTTTATAACTTACATAATGTTACAAATAGGAATTTATAAATTTTCACGTTCTTATCAGATAAAAATTATATAATTGTTTTTCA

>TRINITY_DN40314_c0_g1_i14 from sample A9 / Example unspliced isoform:

GGACTTTTCTGATGATATTCTTACTAGCTATGTCCTATCAATTGCTCTAGTGTATGACATTGACTTCATCTAATTTTTTCCCTTACTTGGATTTCTATTTTTATGACAATTTTCATTGAGCAGTTTTTCCCTGAAGCTAAAGAAGTTGAATTCGCCAAGAAAACAGTTTTTGAAGGAGTTGCATTCAAGATGGACTATTT
GACCAAGCCATCATTACTAGAAGATTTTGGATTTGGCACAAAAGTAAAAATGGTGGAGCGAGTACAACCAACAGATGAAATATTTTTGGTTGCCTATCCATATTTCAATGTGGATGAGATGCTTGTTGTGGAAGAGCTTTACAAGGATGCAGTTGTGCACACAGATCGCAAACTGATTATTTTCAATGGAGAACTAGACC
GAATAAGGAGTGGTTgtatctttcatgaaatatgacaatacatagaagcccatccatgattaaaatcttatttatttttcctttacagagaaatttctgtttttaaagtatcatttcttaaaccatcaagttctactccatacggggtgaatggacatcagtttacaatgatgtttattcttgaccattttagATTACCC
TCCATTCTTCTATCCAAAGATTGGAGCCCTTGCAAGGAACTTCTTGCCCAAGCTTGAGACTGCATATTATATACATAATTTCAAAGGCCGTGCTGGAGGAACACTTTTCAGGTCATATCCAGGACCTTGGCAAGTACTGAGAAAAGTTGGAGACAGGCACGTGTGTATACATCAACAAGAGACCATGCCATCTCTGAAAG
AAGTTGCACTAAGCATTCTACCGTCTGCTTGATATTTCAATTCTACTTAAGTGGCTAAGAAACTTAATTACAGTGTTTCGTGGGAGAATGAGGTAGAATTTTATGTTAAAAAAGCTGTGGTAAAACCAAACAGCATAAAGATACAAAAATTAGACAGGCTTTTTGGGACTTTCAAGGCTTTCCTCCTCTCGTCAGAGAGC
TGGGAGGAAAGGAGCCAACACTTTCTCCTAATTTTTTTCAGTTTCTTGAGTACAAGAGTAAATTCTTACAAATTGCTTACAAAGCAGACTGCAGAAAAAATACATGATTCTTGATTGGGATAAACAGGTTTCCTCCTCTTAAATAGGGGTGAACCCAAGGTGAGTTGGCGG

Intron 2 GTAAGTAATT ... TGTATACCAG

Found issues: Low number of reads

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	70	1	1	4.5
A2	42.86	2	1	2
A3	20	2	1	0
A4	51.92	3	4	2.5
A5	16.66	1	0	0.5
A6	22.22	7	4	0
A7	27.27	4	3	0
A8	0	8	0	0
A9	0	4	0	0
A10	6.67	7	1	0

>TRINITY_DN100772_c8_g1_i1 from sample A4 / Example spliced isoform

GGTCTATTCATTATTTATGCTCCAGAGATTATGAAAAATGCAGATTACAAAATTACCAAAGTCCTCAGAGACATTATCCAGTTTATCATGCCTGCAAAACTTTTGTATAGGGGACTTTTCTCTGCCTTCTCAGCAGGCTAATATGCGAATATTTAATTCAGATACCCAAATTTTCTGCCGCAAACATGGGAATCAGAGAA
TTCCAAAGCGGCCAATTTCTTTTGGATTCCATGATTCCAACCATTTGGTCCCTGGTATCCGGAGGCTTAGAGCAAGCTCTGACAGTCATACAAGCACATCTACTGAGATTGATGTGGCATTCCCTGGAGACTACAGTGAACTGCTTCAGCAGGTAAAAGTGGCAACACAATCAGCATTGATGGATTCAAAGCATTTGCTG


GAGATTGAATTTCCAACTGCTGGGCTTGACTCTGTTTCAGGTGATGCTGAAGGAGGGATAGAGATGAATTCTAGCATGACATTGATTCGAGAATTTTGTGCACGTTTTCTGAAACCAGAAGAAGCCACACGCACACGGATATTTTTCCCTGAAGCTAAAGAAGTTGAATTCGCCAAGAAAACAGTTTTTGAAGGAGTTGC
ATTCAAGATGGACTATTTGACCAAGCCATCATTACTAGAAGATTTTGGATTTGGCACAAAAGTAAAAATGGTGGAGCGAGTACAACCAACAGATGAAATATTTTTGGTTGCCTATCCATATTTCAATGTGGATGGTTTGTCTCCCTCTCTCTATCTATCTATCTCAAACACACACACACACACATGCATGCAC

>TRINITY_DN100772_c8_g1_i16 from sample A4 / Example unspliced isoform:

GGTCTATTCATTATTTATGCTCCAGAGATTATGAAAAATGCAGATTACAAAATTACCAAAGTCCTCAGAGACATTATCCAGTTTATCATGCCTGCAAAACTTTTGTATAGGGGACTTTTCTCTGCCATCTCAGCAGGCAACTAAACAAATCTTCTCCTTCTTAGACTTACGTCAATAAAACGATAAACTGATGGAGGCTA
ATATGCGAATATTTAATTCAGATACCCAAATTTTCTGCCGCAAACATGGGAATCAGAGAATTCCAAAGCGGCCAATTTCTTTTGGATTCCATGATTCCAACCATTTGGTCCCTGGTATCCGGAGGCTTAGAGCAAGCTCTGACAGTCATACAAGCACATCTACTGAGATTGATGTGGCATTCCCTGGAGACTACAGTGAA
CTGCTTCAGCAGGTAAAAGTGGCAACACAATCAGCATTGATGGATTCAAAGCATTTGCTGgtaagtaatttcatgaatttttataatttcagaagtcgttgaggatatgtcgattattattatcattctgggtgctgccattatctgaggacttacaatgagaccaaattctccccatctgctccatgtataccagGAGA
TTGAATTTCCAACTGCTGGGCTTGACTCTGTTTCAGGTGCATAATTTTCATTTACCTCACTTTTCCAACCTCTTCC

Intron 3 GTATCTTTCA ... GACCATTTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	100	0	1	1
A2	57.14	3	4	4
A3	100	0	1	0
A4	20	2	0	1
A5	-1	0	0	0
A6	25	9	2	4
A7	44	7	4	7
A8	31.25	11	3	7
A9	28.57	15	5	7
A10	0	2	0	0

>TRINITY_DN42014_c0_g1_i1 from sample A7 / Example spliced isoform

GGTCTATTCATTATTTATGCTCCAGAGATTATGAAAAATGCAGATTACAAAATTACCAAAGTCCTCAGAGACATTATCCAGTTTATCATGCCTGCAAAACTTTTGTATAGGGGACTTTTCTCTGCCATCTCAGCAGGCTAATATGCGAATATTTAATTCAGATACCCAAATTTTCTGCCGCAAACATGGGAATCAGAGAA
TTCCAAAGCGGCCAATTTCTTTTGGATTCCATGATTCCAACCATTTGGTCCCTGGTATCCGGAGGCTTAGAGCAAGCTCTGACAGTCATACAAGCACATCTACTGAGATTGATGTGGCATTCCCTGGAGACTACAGTGAACTGCTTCAGCAGGTAAAAGTGGCAACACAATCAGCATTGATGGATTCAAAGCATTTGCTG
GAGATTGAATTTCCAACTGCTGGGCTTGACTCTGTTTCAGGTGATGCTGAAGGAGGGATAGAGATGAATTCTAGCATGACATTGATTCGAGAATTTTGTGCACGTTTTCTGAAACCAGAAGAAGCCACACGCACACGGATATTTTTCCCTGAAGCTAAAGAAGTTGAATTCGCCAAGAAAACAGTTTTTGAAGGAGTTGC
ATTCAAGATGGACTATTTGACCAAGCCATCATTACTAGAAGATTTTGGATTTGGCACAAAAGTAAAAATGGTGGAGCGAGTACAACCAACAGATGAAATATTTTTGGTTGCCTATCCATATTTCAATGTGGATGAGATGCTTGTTGTGGAAGAGCTTTACAAGGATGCAGTTGTGCACACAGATCGCAAACTGATTATTT
TCAATGGAGAACTAGACCGAATAAGGAGTGGTTATTACCCTCCATTCTTCTATCCAAAGATTGGAGCCCTTGCAAGGAACTTCTTGCCCAAGCTTGAGACTGCATATTATATACATAATTTCAAAGGCCGTGCTGGAGGAACACTTTTCAGGTCATATCCAGGACCTTGGCAAGTACTGAGAAAAGTTGGAGACAGGCAC
GTGTGTATACATCAACAAGAGACCATGCCATCTCTGAAAGAAGTTGCACTAAGCATTCTACCGTCTGCTTGATATTTCAATTCTACTTAAGTGGCTAAGAAACTTAATTACAGTGTTTCGTGGGAGAATGAGGTAGAATTTTATATTAAAAAAGCTGTGGTCAAACCAAACAGCATAAAGATACAGAAATTAGGCAG

>TRINITY_DN42014_c0_g1_i6 from sample A7 / Example unspliced isoform:

ATATAAGACAACACATATGTAGCCCACAGAAATACTCACGTTCATATGCTAGCACTTCTTCCGGCGATGTGGTTTGCGTAACCTGTTTATTGACAAGATGATCGATGACAAATTTTTATCATTAATTTTGGGGAATCAATGCTTCATAATTGTTATGGCCTTGTACTGATAAAAGGCTACATTGTCTAGAGATGCTTGTT
GTGGAAGAGCTTTACAAGGATGCAGTTGTGCACACAGATCGCAAACTGATTATTTTCAATGGAGAACTAGACCGAATAAGGAGTGGTTgtatctttcatgaaatatgacaatacatagaagcccatccatgattaaaatcttatttatttttcctatacagagaaattttctgtttttaaagtatcatttcttaaaccat
caagttctactccatatggggtgaatggacatcagtttagaatgatgtttatccttgaccatttagATTACCCTCCATTCTTCTATCCAAAGATTGGAGCCCTTGCAAGGAACTTCTTGCCCAAGCTTGAGACTGCATATTATATACATAATTTCAAAGGCCGTGCTGGAGGAACACTTTTCAGGTCATATCCAGGACCT
TGGCAAGTACTGAGAAAAGTTGGAGACAGGCACGTGTGTATACATCAACAAGAGACCATGCCATCTCTGAAAGAAGTTGCACTAAGCATTCTACCGTCTGCTTGATATTTCAATTCTACTTAAGTGGCTAAGAAACTTAATTACAGTGTTTCGTGGGAGAATGAGGTATATATGTTGTGGGGTATTTCAAAATGGGAATT
ATAACCTGGTGTTCTTTATTTTGCTGTCTGTCTTTTATAACTTACATAATGTTACAAATAGGAATTTATAAATTTTCACGTTCTTATCAGATAAAAATTATATAATTGTTTTTCATTTTATGGAAACAGGTAGAATTTTATGTTAAAAAAGCTGTGGTAAAACCAAACAGCATAAAGATACAAAAATTAGACAGGCTTTT
TGGGACTTTCAAGGCCG