Sequence
atgc intronic sequence ATGC exonic sequencegtactaattagttcaatatacaaatggaaaagaaacatcgtagatttaagaagaattaatagagcttttgttaacatagatgtggttttggttcatttgtaacagATAGATGCAAGCTGGGCTATGATGAGCAGAATGAGTGGTACTTTTTCAGTCACAAAGACAAGAAGTATCCGACGGGAACCCGGACAAATAGAGCTACTGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0072g01060.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G36050.1 (Glycine max), 3'ss of exon 2
------------------------------------------------------------------------------------gtactaattagttcaatatacaaatggaaa----agaaacatcgtagatttaagaagaattaataga----gcttttgttaacatagatgtg-gttttggttcatttgtaacagATAGATGCAAGCTGGGCTATGATGAGCAGAATGAGTGGTACTTTTTCAGTCACAAAGACAAGAAGTATCCGACGGGAACCCGGACAAATAGAGCTACTGC
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gtatatatatatatttagttatcacaatgcaatttgcttgacaccaatatgttcacttaaagggacataattaatcatctttaagtaattatagttcaaaaaaacaaaagtcaactttagaaatttgataaactcatggagcaaagacatatcatgcatatgacattatagttacaagatgtgcttgaaatatg-cagATAGGTGCAAGCTAGGATATGAGCAGCAGAATGAGTGGTACTTTTTCAGCCATAAAGACAAGAAGTATCCAACAGGGACAAGAACTAACAGGGCAACTGC
upper sequence: Vv18s0072g01060.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G31550.1 (Glycine max), 3'ss of exon 2
-gtactaattagttcaatatacaaatggaaaagaaacatcgtagatttaagaagaattaatagagcttttgttaacatagatgtggttttggttcatttgtaacagATAGATGCAAGCTGGGCTATGATGAGCAGAATGAGTGGTACTTTTTCAGTCACAAAGACAAGAAGTATCCGACGGGAACCCGGACAAATAGAGCTACTGC
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aagcttcatcagttaattatacccat---atcgtaaccttatggagc-aagacatatcatgcatgacattatagtgacaagttt--ttgtgcttgaaaatatgcagATAGGTGCAAGCTAGGATATGAGCAGCAGAATGAGTGGTACTTTTTCAGCCATAAAGATAAGAAGTATCCAACAGGGACAAGAACTAACAGGGCCACTGC
upper sequence: Vv18s0072g01060.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S223_12V6.2 (Physcomitrella patens), 3'ss of exon 2
-----------------------------------------------------------------gtactaattagttcaatatacaaa-tggaaaagaaacatcgtagatttaagaagaatt--aatagagcttttgttaacatagatgtggtt-ttggttcatttgtaacagATAGATGCAAG--CTGGGCT-------ATGATGAGCAGAATGAGTGGTACTTTTTCAGTCACAAAGACAAGAAGTATCCGACGGGAACCCGGACAAATAGAGCTACTGC
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gtatgcaacaattcatttcagagtattcgtagcatttttcatgttgagggatgtcaatagatttgggacccggaacatagccttaagaactggattgaaaaccacaccacctgatgtgatatttgactccatacttcatcacctaaaattcgggtgttaaatcat--gcaacagATCTTTGCAAAATCCAGGCCGACTCAAATGAGAAGCAAACCGATTACTACTTTTTCAGTCGCAAGGACAAGAAGTACCCGACGGGCAACCGCGCCAACCG---------
upper sequence: Vv18s0072g01060.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ32131 (Selaginella moellendorffii), 3'ss of exon 1
-----gtactaattagttcaatatacaaat--ggaaaagaaacatcgtagatttaagaa----gaattaatagagcttttgttaacatagatgtggttttggttcatttgtaacagATAGA----TGCAAGCTGGGCTATGATGAGCAGAATGAGTGGTACTTTTTCAGTCACAAAGACAAGAAGTATCCGACGGGAACCCGGACAAATAGAGCTACTGC
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gtaagacggtcatccctcaagcttctcatttcggaaaaaaaaaaccgttctttggaagtctttgcgttctaaatgtctcttctctcactgccatcgatgaattgcgtttgccacacacagAACGGTGCCGAATTGGCTCCGCGGAGCAGCACGAGTGGTACTTCTTCAGCCACAAAGACAAGAAATACCCGACCGGGACGAGGACCAACAGAGCCACCGG
upper sequence: Vv18s0072g01060.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ22020 (Selaginella moellendorffii), 3'ss of exon 1
gtactaattagttcaatatacaaatggaaaagaaacatcgtagatttaagaagaattaatagagcttttgttaacatagatgtggttttggttcatttgtaacagATAGATGCAAGCTGGGCTATGATGAGCAGAATGAGTGGTACTTTTTCAGTCACAAAGACAAGAAGTATCCGACGGGAACCCGGACAAATAGAGCTACTGC
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--------------------------gtagtctagtctcctccatttcgatatgattg-cacacc----actgacacctctttcattgttcttcgattttggcagAGAAGTGTAAGATCGGATCAGCTGAACAAACCGAATGGTACTTTTTCAGTCACAAGGACAAGAAGTATCCCACGGGAACTCGCACCAACAGAGCCACCGC
upper sequence: Vv18s0072g01060.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ37712 (Selaginella moellendorffii), 3'ss of exon 1
-----gtactaattagttcaatatacaaat---ggaaaagaaacatcgtagatttaagaa----gaattaatagagcttttgttaacatagatgtggttttggttcatttgtaacagATAGA----TGCAAGCTGGGCTATGATGAGCAGAATGAGTGGTACTTTTTCAGTCACAAAGACAAGAAGTATCCGACGGGAACCCGGACAAATAGAGCTACTGC
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gtaagacggtcatccctcaagcttctcatttcgggaaaaaaaaaaccgttctttggaagtctttgcgttctaaatgtctcttctctcactgccatcgatgaattgcgtttgccacacacagAACGGTGCCGAATTGGCTCCGCGGAGCAGCACGAGTGGTACTTCTTCAGCCACAAAGACAAGAAATACCCGACCGGGACGAGGACCAACAGAGCCACCGG
upper sequence: Vv18s0072g01060.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ18283 (Selaginella moellendorffii), 3'ss of exon 1
gtactaattagttcaatatacaaatggaaaagaaacatcgtagatttaagaagaattaatagagcttttgttaacatagatgtggttttggttcatttgtaacagATAGATGCAAGCTGGGCTATGATGAGCAGAATGAGTGGTACTTTTTCAGTCACAAAGACAAGAAGTATCCGACGGGAACCCGGACAAATAGAGCTACTGC
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--------------------------gtagtctagtctcctccatttcgacatgatta-cacacc----actgacacctctttcattgttcttcgattttggcagAGAAGTGTAAGATCGGATCAGCTGAACAAACCGAATGGTACTTTTTCAGTCACAAGGACAAGAAGTATCCCACGGGAACTCGCACCAACAGAGCCACCGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagaattaatagagcttttgttaacatagatgtggttttggttcatttgtaacagATAGATGCAAGCTGGGCTATGATGAGCAGAATGAGTGGTACTTTTTCAGTCACAAAGACAAGAAGTATCCGACGGGAACCCGGACAAATAGAGCTACTGC
tgttaac putative branch site (score: 2)
ttcattt putative PPT
ttttgttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactaattagttcaatatacaaatggaaaagaaacatcgtagatttaagaagaattaatagagcttttgttaacatagatgtggttttggttcatttgtaacagATAGATGCAAGCTGGGCTATGATGAGCAGAATGAGTGGTACTTTTTCAGTCACAAAGACAAGAAGTATCCGACGGGAACCCGGACAAATAGAGCTACTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT