Sequence
atgc intronic sequence ATGC exonic sequencegtcagtagcattccctgtgagtatatgttctgcattatgaaatgacgtgttgattcattgaagatattataaattttttgtagGTGATGTATGAAGAAGCAAGTCAAGTTGCAAATGATGCAGTTAGCAGCATCAGAACGGTTGCATCATTTTGTGCTGAGAAGAAGGTGATGGAGATGTATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g02570.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os05g47500.1 (Oryza sativa), 3'ss of exon 10
--------gtcagtagcattccctgtgagtatatgttctgcattatgaaa--------tgacgt-gttgattcattgaagatattataaatttt-ttgtagGTGATGTATGAAGAAGCAAGTCAAGTTGCAAATGATGCAGTTAGCAGCATCAGAACGGTTGCATCATTTTGTGCTGAGAAGAAGGTGATGGAGATGTATC
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cacgatatatttgt-gcattctctttcctttcatccttatggatgtgacagtcatttttaaagttgtttgttttccatttatgtttgatatgtgactgtagATCATGTATGAAGAAGCAAGCCAAGTTGCAACTGATGCAGTTGGTAGCATCAGAACAGTAGCATCTTATTGTGCTGAGAAGAAAGTGATGACAAAATACA
upper sequence: Vv10s0003g02570.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os01g34970.1 (Oryza sativa), 3'ss of exon 9
-----gtcagtagcattccctgtgagtatatgttctgcattatgaaatgacgtgttg--------attcattgaagatattataaatt-ttttgtagGTGATGTATGAAGAAGCAAGTCAAGTTGCAAATGATGCAGTTAGCAGCATCAGAACGGTTGCATCATTTTGTGCTGAGAAGAAGGTGATGGAGATGTATC
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gtacatacaatgg-attaatcatgagcat-tgtgctacccttacagatgctttctcatgcaacacgttgtttgatgttattctttgttgtaatgcagCTGAAGTATGAAGAAGCAAGTCAAGTAGCAACTGATGCAGTTGGAGGCATCAGAACTGTGGCATCATTTTGTGCTGAGCAGAAAGTGATAGAAGCATATG
upper sequence: Vv10s0003g02570.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os01g50160.1 (Oryza sativa), 3'ss of exon 9
--------------gtcagtagcattccctgtgagtatatgttctgcattatgaaatgacgtgttgattcattgaagatattataaatt-----ttttgtagGTGATGTATGAAGAAGCAAGTCAAGTTGCAAATGATGCAGTTAGCAGCATCAGAACGGTTGCATCATTTTGTGCTGAGAAGAAGGTGATGGAGATGTATC
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agtttctaaatttcatgacgaataatgagaaacaacattcactctagatacatttttcacaacttgcttaaattgtgaca--atgaattcctggtttggcagATGTTGTATGAAGATGCAAGTCAAGTGGCTACTGATGCAGTAAGCAGCATCAGGACTGTAGCTTCCTTTTGTTCTGAGAAAAGAGTGATGACAATGTATG
upper sequence: Vv10s0003g02570.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os01g50080.1 (Oryza sativa), 3'ss of exon 7
---------------------gtcagtagcattccctg-tgagtatatgttctgcattatgaaatgacgtgttgattcattgaagatattataaattttttgtagGTGATGTATGAAGAAGCAAGTCAAGTTGCAAATGATGCAGTTAGCAGCATCAGAACGGTTGCATCATTTTGTGCTGAGAAGAAGGTGATGGAGATGTATC
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gtattacaactgacatatttcatgattggcatcgcataatgaatttttttcttgcaatattagtaaa--tattgttttgctaac--tgctagcgatttct-acagGTGATGTATGAAGATGCAAGTCAAGTTGTAACTGAAGCAATTGGTAGCATTAGGACTGTAGCGTCTTTCTGTGCAGAGAAGAGAGTGATTAAAACATACA
upper sequence: Vv10s0003g02570.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA13G29380.1 (Glycine max), 3'ss of exon 9
gtcagtagcattccctgtgagtatatgttctgcattatgaaatg--acgtgttgattcattga-agatattataaattttttgtagGTGATGTATGAAGAAGCAAGTCAAGTTGCAAATGATGCAGTTAGCAGCATCAGAACGGTTGCATCATTTTGTGCTGAGAAGAAGGTGATGGAGATGTATC
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gttggtctaaatttagttatgctgat-tccatcaatagaaattagaaagtaagcatatgttgacaagagtcctttgtcttttatagGTGATGTATGAGGAGGCAAGTCAGGTGGCAACTGATGCTGTTGGTAGCATTAGAACTGTTGCATCATTCTGTGCTGAGCCAAAGGTGATGGAAATGTACA
upper sequence: Vv10s0003g02570.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA15G09680.1 (Glycine max), 3'ss of exon 9
gtcagtagcattccctgtgagtatatgttctgcatta-tgaaatgacgtgtt---gattcattgaagatattataaattttttgtagGTGATGTATGAAGAAGCAAGTCAAGTTGCAAATGATGCAGTTAGCAGCATCAGAACGGTTGCATCATTTTGTGCTGAGAAGAAGGTGATGGAGATGTATC
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---gttagccttacttgcaactttgtcaattccattaatgaaattatgcattatggacatcatgagaatattttgtctgctgtgtagGCAAAGTATGAAGAGGCAAGTCAAGTGGCAAATGATGCTGTTGGTAGCATCAGAACCATTGCATCATTCTGTGCCGAATCAAAGGTGATGGATATGTACA
upper sequence: Vv10s0003g02570.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT4G18050.1 (Arabidopsis thaliana), 3'ss of exon 9
----------gtcagtagcattccctgtgagtatatgttctgcatta--tgaaatgacgtgttgattcattgaagatattataaattttttgtagGTGATGTATGAAGAAGCAAGTCAAGTTGCAAATGATGCAGTTAGCAGCATCAGAACGGTTGCATCATTTTGTGCTGAGAAGAAGGTGATGGAGATGTATC
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gttttaatatagtggttacaacatttttttgaatatatcccggtttagtcgcgatttcgggtttactgatcgattttttttctggttt-----agGCGATGTATGAAGAAGCGAGTCAAGTGGCGAATGATGCAGTGAGCAGCATAAGAACGGTTGCATCTTTCTGTGCAGAGGAGAAAGTGATGGATTTATACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgcattatgaaatgacgtgttgattcattgaagatattataaattttttgtagGTGATGTATGAAGAAGCAAGTCAAGTTGCAAATGATGCAGTTAGCAGCATCAGAACGGTTGCATCATTTTGTGCTGAGAAGAAGGTGATGGAGATGTATC
tgttgat putative branch site (score: 4)
ttttttgt putative PPT
ttgattcattgaagat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtagcattccctgtgagtatatgttctgcattatgaaatgacgtgttgattcattgaagatattataaattttttgtagGTGATGTATGAAGAAGCAAGTCAAGTTGCAAATGATGCAGTTAGCAGCATCAGAACGGTTGCATCATTTTGTGCTGAGAAGAAGGTGATGGAGATGTATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG