Sequence
atgc intronic sequence ATGC exonic sequence...atggtaatggcatgggaatagctgtatggtcatgtgatttaatgctcaacagatgctagagaaagcacaaatcattgatccgccaaggtgggttttgcagGATGTTTCAAAGAGTGTGACAAAACTTGCTGTAAGAGAATCCCGAGCACAGGATCTGAGGAATGAAATTCTCAACTCTGAAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0525g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G29360.1 (Glycine max), 3'ss of exon 11
atggtaatggcatgggaatagctgtatggtcatgtgatttaatgctcaacagatgctagagaaagcacaaatcattgatccgccaaggtgggttttgcagGATGTTTCAAAGAGTGTGACAAAACTTGCTGTAAGAGAATCCCGAGCACAGGATCTGAGGAATGAAATTCTCAACTCTGAAAA
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ctcttttctgcctttaggtggatatgctatcgtgcctaagtagatttggtgtatctagctgcttttgtaaataataatgatgattgactttttcttgcagGATGTTGCAAAGAGTGTGACTAGAATTGCTGTCCGAGAGTCACGAGCCCAGGATCTGAGGAATGAAATTTTGAACTCTGAAAA
upper sequence: Vv00s0525g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G37930.1 (Glycine max), 3'ss of exon 5
---atggtaatggcatgggaata-gctgta--tggtcatgtg-atttaatgctcaacagatgctagagaaagcacaaatcattgatccgccaaggtgggttttgcagGATGTTTCAAAGAGTGTGACAAAACTTGCTGTAAGAGAATCCCGAGCACAGGATCTGAGGAATGAAATTCTCAACTCTGAAAA
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tcttttctgactttaggtggatatgctatgcgtgcccaagtatatttggtg-taactagctgcttttgaaaataataatgat-gattggc-----tttttcttgcagGATGTTGCAAAGAGTGTAACTAGAATTGCTGTCCGAGAGTCACGAGCCCAGGATTTGAGGAATGAAATTTTGAACTCTGAAAA
upper sequence: Vv00s0525g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G34910.1 (Arabidopsis thaliana), 3'ss of exon 11
atggtaatggcatgggaatagctgtatggtcatgtgatttaatgctcaacagatgctagagaaagcacaaatcattgatccgccaaggtgggttttgcagGATGTTTCAAAGAGTGTGACAAAACTTGCTGTAAGAGAATCCCGAGCACAGGATCTGAGGAATGAAATTCTCAACTCTGAAAA
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-----------gtgagta-atctctgtagtaagatgattacttctttcattaa----gtgaacagtattaaaagttg------caatttg---tttgcagGATGTGGCAAAGAGTGTTACAAAGATTGCGGTTCGAGAGTCTCGAGCTCAGGATTTGAGGAATGAGATAATCAACTCTGAAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaacagatgctagagaaagcacaaatcattgatccgccaaggtgggttttgcagGATGTTTCAAAGAGTGTGACAAAACTTGCTGTAAGAGAATCCCGAGCACAGGATCTGAGGAATGAAATTCTCAACTCTGAAAA
cattgat putative branch site (score: 4)
aaatcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atggtaatggcatgggaatagctgtatggtcatgtgatttaatgctcaacagatgctagagaaagcacaaatcattgatccgccaaggtgggttttgcagGATGTTTCAAAGAGTGTGACAAAACTTGCTGTAAGAGAATCCCGAGCACAGGATCTGAGGAATGAAATTCTCAACTCTGAAAA
- - - - -gcatggg
- - - - - - - - - - - tgtatgg
- - - - - - - - - - - - - - - catgtga
- - - - - - - - - - - - - - - - - - - - - -gctcaac
- - - - - - - - - - - - - - - - - - - - - - - - - - atgctag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaatcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccgccaa