Sequence
atgc intronic sequence ATGC exonic sequence...tgcctagtgtagtcttcgaagtttgatcaagcatgcaattgattttgaaaattttattttatttctgtggtaatctgaatggtatattgtggcagctcagATGTTTTCTCTTATCCGGAGGATGATAGTGTTTTGGACCCCCTTCTAGCACAGCATTTGGCATTTTTTGGTATTGATTTTTCATCATTACAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g03920.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G107696_T02 (Zea mays), 3'ss of exon 8
tgcctagtgtagtcttcgaagtttgatcaa-gcatgcaattgattttgaaaattttattttatttctgtggtaa-tctgaatggtatatt----gtggcagctcagATGTTTTCTCTTATCCGGAGGATGATAGTGTTTTGGACCCCCTTCTAGCACAGCATTTGGCATTTTTTGGTATTGATTTTTCATCATTACAGAAG
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---ttattaaacaccttaattttttactaatatatgcaattagt---ggctgctctgattgcttgttaaaatacctgttgatgccatattttctgtgacagctcagATGTTTTCTCGTACCCTGAAGATGATAGTGTTGAAGATCCGCTATTAGCTCAGCACTTATCACATTTTGGTATCGATTTTTCTTCACTCCAAAAG
upper sequence: Vv19s0014g03920.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G39770.1 (Glycine max), 3'ss of exon 4
----tgcctagtgtagtcttcgaagtttgatcaagcatgcaattgattttgaaaattttattttatttc-tgtggtaatc-tgaatggtatattgtggcagctcagATGTTTTCTCTTATCCGGAGGATGATAGTGTTTTGGACCCCCTTCTAGCACAGCATTTGGCATTTTTTGGTATTGATTTTTCATCATTACAGAAG
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atcatttcaactata-tattctaaatatgttctatggagtagatgaactt-----tttcattttccgtggtgtgctaattatgggtaatgtattgtggcagctcagATGTTTACTCTTATCCAGACGATGAAAGTGTCTTGGATCCACAATTAGCACAGCATCTGGCATTTTTTGGCCTTGACTTTTCATCACTACGAAAG
upper sequence: Vv19s0014g03920.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G22240.1 (Glycine max), 3'ss of exon 4
tgcctagtgtagtcttcgaagtttgatcaagcatgcaattgattttgaaaatttt-attttatttc-tgtggtaatc-tgaatggtatattgtggcagctcagATGTTTTCTCTTATCCGGAGGATGATAGTGTTTTGGACCCCCTTCTAGCACAGCATTTGGCATTTTTTGGTATTGATTTTTCATCATTACAGAAG
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tatgtttctatataatctaaatatgctc---tatggagtaaatgatgaactttttcattttctgtggtgtgctaattatgggtaatgtattgtgacagcacagATGTTTACTCTTATCCAGATGATGAAAGTGTCTTGGATCCACAATTAGCGCAGCATCTGGCATTTTTTGGCATTGACTTTTCATCACTACGAAAG
upper sequence: Vv19s0014g03920.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G20630.1 (Arabidopsis thaliana), 3'ss of exon 4
tgcctagtgtagtcttcgaagtttgat-caagcatgcaat-tgattttgaaaattttattttatttctgtggtaatc--tgaatg-gtatattgtggcagctcagATGTTTTCTCTTATCCGGAGGATGATAGTGTTTTGGACCCCCTTCTAGCACAGCATTTGGCATTTTTTGGTATTGATTTTTCATCATTACAGAAG
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-----gttttttttttttaatgttgatgcatgtggattatcttgttctttggatgggttttgatttcttcagcacttaatcattgcaaattttttggcagctcagATGTTTATTCCTATCCGGAAGATGACAGTGTTTTGGACCCGCTCCTGGCTGAGCATCTGGCCCATTTTGGAATTGACTTCTCGTCGATGCAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaaaattttattttatttctgtggtaatctgaatggtatattgtggcagctcagATGTTTTCTCTTATCCGGAGGATGATAGTGTTTTGGACCCCCTTCTAGCACAGCATTTGGCATTTTTTGGTATTGATTTTTCATCATTACAGAAG
attttattttatttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcctagtgtagtcttcgaagtttgatcaagcatgcaattgattttgaaaattttattttatttctgtggtaatctgaatggtatattgtggcagctcagATGTTTTCTCTTATCCGGAGGATGATAGTGTTTTGGACCCCCTTCTAGCACAGCATTTGGCATTTTTTGGTATTGATTTTTCATCATTACAGAAG
tgcctag
- - - - - - - - - - - - - - - gcatgca
- - - - - - - - - - - - - - - - - - - - - - ttgaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgaatgg