Sequence
atgc intronic sequence ATGC exonic sequence...attccaagctatgaatttgattctgaacagcaaactgagcttcttactagaactgtttcagaattagcaaggctgtatatatgtttctttctgcttgcagGTTGAAGTTCTCAGCTGCATACGCCATCCTAACATGGTTCTCCTCCTGGGAGCCTGCCCAGAGTATGGATGCTTGGTCTATGAGTACATGGCTAATGGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g02910.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G08210.1 (Glycine max), 3'ss of exon 9
------attccaagctatgaatttgattctgaacagcaaactgagcttcttactagaactgtttcagaattagcaaggctgtatatatgtttctttctgc-ttgcagGTTGAAGTTCTCAGCTGCATACGCCATCCTAACATGGTTCTCCTCCTGGGAGCCTGCCCAGAGTATGGATGCTTGGTCTATGAGTACATGGCTAATGGGA
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catcctctacatgacttttaagacaatttttataa--aagtcgataaacttatcata--tatgacacgatttgtga--ttagatg-atattgtaatgcacatcacagGTTGAGGTGTTGAGCTGCATACGGCATCCAAACATGGTTCTCCTCCTAGGAGCGTGTCCAGAATACGGGTGTCTAGTGTATGAGTACATGGCAAATGGAA
upper sequence: Vv04s0008g02910.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G08140.1 (Glycine max), 3'ss of exon 8
-----attccaagctatgaatttgattctgaacagcaaactgagcttcttactagaactgtttcagaattagcaaggctgtatatatgtttctttctgcttgcagGTTGAAGTTCTCAGCTGCATACGCCATCCTAACATGGTTCTCCTCCTGGGAGCCTGCCCAGAGTATGGATGCTTGGTCTATGAGTACATGGCTAATGGGA
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ccaaacattcaagtgatga--tcaagtcatactagccagaaagggctaaaac-atttgtatgccatgtttggttgaattggttgaatgtaatgcaca--ttacagGTTGAGGTGTTGAGCTGCATACGGCATCCAAACATGGTTCTCCTCCTAGGTGCGTGTCCAGAATACGGGTGTCTAGTGTATGAGTACATGGCAAATGGAA
upper sequence: Vv04s0008g02910.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G28970.1 (Glycine max), 3'ss of exon 5
----attccaagctatgaatttg-attctgaacagcaaactgagcttcttactagaactgt-ttcagaattagcaaggctgtatatatgtttctttctgcttgcagGTTGAAGTTCTCAGCTGCATACGCCATCCTAACATGGTTCTCCTCCTGGGAGCCTGCCCAGAGTATGGATGCTTGGTCTATGAGTACATGGCTAATGGGA
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ccacatttgcctacatttttctgcaattttagtactcaacacaaata-ttacaacaattgcatccacaatt--taaaaccatacttttggatgaa---aattacagGTTGAGGTATTGAGTTGCATTAGGCATCCAAACATGGTTCTTCTCCTAGGAGCCTGCCCTGAGTACGGCTGCCTTGTATATGAGTACATGTCAAACGGAA
upper sequence: Vv04s0008g02910.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA14G18380.1 (Glycine max), 3'ss of exon 10
attccaagc-tatga-atttg---attctgaacagcaaactgagcttcttactagaactgtttcagaattagcaaggctgtatatatgtttctttctgcttgcagGTTGAAGTTCTCAGCTGCATACGCCATCCTAACATGGTTCTCCTCCTGGGAGCCTGCCCAGAGTATGGATGCTTGGTCTATGAGTACATGGCTAATGGGA
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atcctaatcatgccacatttgtctacatttttctgcacttttagtattcaacagaaatattaccacaatt--taaaaccatactttggtctgaacat---tacagGTTGAGGTATTGAGTTGCATTAGGCATCCAAACATGGTTCTCCTCCTAGGAGCCTGCCCTGAGTACGGCTGTCTTGTGTATGAGCACATGTCAAACGGAA
upper sequence: Vv04s0008g02910.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT4G31230.1 (Arabidopsis thaliana), 3'ss of exon 8
attccaagctatgaatttgattctgaacagcaaactgagcttcttactagaactgtttcagaatt-agcaaggctgtatatatgtttctttctgcttgcagGTTGAAGTTCTCAGCTGCATACGCCATCCTAACATGGTTCTCCTCCTGGGAGCCTGCCCAGAGTATGGATGCTTGGTCTATGAGTACATGGCTAATGGGA
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gtgaagtctcgtaacaatgtctatgaaatacacctcggactctttcttggc----taacagactttaattaagctttctactatttatcaaccaaacacagGTTGAAGTGTTATGCAGTATAAGGCACCCTAACATGGTTCTTCTGCTTGGAGCATGCCCAGAATGTGGATGCTTAGTGTATGAGTTCATGGCTAATGGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actagaactgtttcagaattagcaaggctgtatatatgtttctttctgcttgcagGTTGAAGTTCTCAGCTGCATACGCCATCCTAACATGGTTCTCCTCCTGGGAGCCTGCCCAGAGTATGGATGCTTGGTCTATGAGTACATGGCTAATGGGA
ttcttac putative branch site (score: 2)
tgtttctttctgctt putative PPT
tatatatgtttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attccaagctatgaatttgattctgaacagcaaactgagcttcttactagaactgtttcagaattagcaaggctgtatatatgtttctttctgcttgcagGTTGAAGTTCTCAGCTGCATACGCCATCCTAACATGGTTCTCCTCCTGGGAGCCTGCCCAGAGTATGGATGCTTGGTCTATGAGTACATGGCTAATGGGA
- tccaagc
- - - - - - - - - - - - - - - -aaactga
- - - - - - - - - - - - - - - - - - - - - - - - - - ctgtttc