Sequence
atgc intronic sequence ATGC exonic sequencegtatatgaggtttaacagctgcagctttcagtatttttcactgttctgaagttttttattttatattactggacagGGAACTGTAGTGGAGGGGACAATACAGCAGTTGTTTGAAGGGCACCATATGAACTACATTGAGTGCATCAATGTGGACTACAAATCTACAAGAAAGGAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g56490.1 (Oryza sativa), 3'ss of exon 6
gtatatgaggtttaacagctgcagctttcag-tatttttcactgttctgaagttttttattttatattactggacagGGAACTGTAGTGGAGGGGACAATACAGCAGTTGTTTGAAGGGCACCATATGAACTACATTGAGTGCATCAATGTGGACTACAAATCTACAAGAAAGGAAT
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--gttggacatttatttttgttatatgtaagataataaatagtgtttcatcaatgtacaactactctctcgattcagGGAACTACTGTGGAAGGGACAATTCAACAGCTATTTGAAGGTCATCATATGAATTATATTGAGTGCATTAATGTTGACTACAAATCTACAAGGAAAGAAT
upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G014805_T01 (Zea mays), 3'ss of exon 6
gtatatgaggtttaacagctgcagctttcagtatttttcactgttctgaagttttttattttatattactggacagGGAACTGTAGTGGAGGGGACAATACAGCAGTTGTTTGAAGGGCACCATATGAACTACATTGAGTGCATCAATGTGGACTACAAATCTACAAGAAAGGAAT
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----gtgaa-tatgacaataatgaattatcat----tacaccaatttactttttattaacttttctttctacacagGGAACTGTTGTGGAAGGAACAATTGAACAATTATTCGAAGGCCACCACATTAATTACATTGAGTGCATTAACGTGGACTATAAATCTAACAGAAAAGAAT
upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G11910.2 (Arabidopsis thaliana), 3'ss of exon 6
gtatatgaggtttaacagc-tgcagctttcagtatttttcactgttctgaagttttttattttatattactggacagGGAACTGTAGTGGAGGGGACAATACAGCAGTTGTTTGAAGGGCACCATATGAACTACATTGAGTGCATCAATGTGGACTACAAATCTACAAGAAAGGAAT
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gtaaattgtcttcttcatcgtgttctttctttcattctcagttggtgttcatgttttaatttttttcctttttcaagGGAACTGTTGTGGAGGGAACAATACAAAAGCTATTTGAAGGTCACCACATGAATTACATTGAGTGCATTAATGTAGATTACAAATCTACACGGAAAGAGT
upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G06600.1 (Arabidopsis thaliana), 3'ss of exon 6
--------gtatatgaggtttaaca--gctgcagctttcagt-atttttcactgttctgaagttttttattttatattactggacagGGAACTGTAGTGGAGGGGACAATACAGCAGTTGTTTGAAGGGCACCATATGAACTACATTGAGTGCATCAATGTGGACTACAAATCTACAAGAAAGGAAT
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gtaatttttcttttgttgtcaggccatgatttactactcagttggtgtttcttgtttttgagctcttttttcttcgtttttctgtagGGAACTGTTGTGGAGGGAACAATACAACAACTTTTTGAGGGCCACCATATGAATTACATTGAGTGCATAAATGTAGATTTTAAATCTACACGGAAAGAAT
upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S123_138V6.1 (Physcomitrella patens), 3'ss of exon 6
-------------------------gtatatgaggttt--aacagctgcagctttcagtatttttcactgttctgaagttttttattttatattactggacagGGAACTGTAGTGGAGGGGACAATACAGCAGTTGTTTGAAGGGCACCATATGAACTACATTGAGTGCATCAATGTGGACTACAAATCTACAAGAAAGGAAT
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gtatggataaatctctgttagctatgtcttctcggttttcaagagtagctgggtacattatgttt-actggtgggaatccttctgtgctttt-------acagGGAACTGCTGTCGAGGGCACAATCCAGCAACTGTTCGAAGGGCATCACATGAACTACATAGAGTGCATCAATGTTGATTATAAATCAACACGGAAAGAGT
upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S42_181V6.1 (Physcomitrella patens), 3'ss of exon 6
gtatatgaggtttaa--cagctgcagctttcagtatttttcactgttctgaagttttttatttta----tatta----------ctgg------acagGGAACTGTAGTGGAGGGGACAATACAGCAGTTGTTTGAAGGGCACCATATGAACTACATTGAGTGCATCAATGTGGACTACAAATCTACAAGAAAGGAAT
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gtatggaagaattagttctagtcttgttttcttttctttcctgagttgcgtcgtatgtgatcttaactttgttgtggttctcacctggcctttcgcagGGTACCGCTGTTGAGGGCACAATTCAACAACTGTTTGAAGGTCATCATATGAACTACATAGAGTGTATCAATGTTGACTACAAGTCAACACGCAAAGAGT
upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ14291 (Selaginella moellendorffii), 3'ss of exon 4
gtatatgaggtttaacagctgcagctttcagtatttttcactgttctgaa-gttttttatt-ttatattactggacagGGAACTGTAGTGGAGGGGACAATACAGCAGTTGTTTGAAGGGCACCATATGAACTACATTGAGTGCATCAATGTGGACTACAAATCTACAAGAAAGGAAT
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-----------------------gtttactgctattttcttcacgttaaatgttttctaacaccaagctccactacagAGTACTGCTGTTGAAGGTACCATACAGCAGCTTTTCGAAGGCCATCATATGAATTATATTGAATGCATCAATGTGGACTATAAGTCCACTCGAAAGGAAT
upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ18164 (Selaginella moellendorffii), 3'ss of exon 4
gtatatgaggtttaacagctgcagctttcagtatttttcactgttctgaa-gttttttatt-ttatattactggacagGGAACTGTAGTGGAGGGGACAATACAGCAGTTGTTTGAAGGGCACCATATGAACTACATTGAGTGCATCAATGTGGACTACAAATCTACAAGAAAGGAAT
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-----------------------gtttactgctattttcttcacgttaaatgttttctaacaccaagctccactacagAGTACTGCTGTTGAAGGTACCATACAGCAGCTTTTCGAAGGCCACCATATGAATTATATTGAATGCATCAATGTGGACTACAAGTCCACTCGAAAGGAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagctttcagtatttttcactgttctgaagttttttattttatattactggacagGGAACTGTAGTGGAGGGGACAATACAGCAGTTGTTTGAAGGGCACCATATGAACTACATTGAGTGCATCAATGTGGACTACAAATCTACAAGAAAGGAAT
tgttctgaagtttttt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatgaggtttaacagctgcagctttcagtatttttcactgttctgaagttttttattttatattactggacagGGAACTGTAGTGGAGGGGACAATACAGCAGTTGTTTGAAGGGCACCATATGAACTACATTGAGTGCATCAATGTGGACTACAAATCTACAAGAAAGGAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA