Sequence
atgc intronic sequence ATGC exonic sequencegtaagttctcaccccccaaaaatgatctcagtgaagttcttttgcagattacatgtaaattttttcgatttcagctgtcactctaataattttgatgctttttattttccataaaaaagGCTGATGCAGATGGCAATGGAACCATTGACTATGATGAGTTTATCACGGCAACAATGCACCTGAACAGAATGGACAAAGAAGACCATCTTTACACAGCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g03150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os11g04170.1 (Oryza sativa), 3'ss of exon 3
gtaagttctcaccccccaaaaatgatctcagtgaagttcttttgcagattacatgtaaattttttcgatttcagctgtcactctaataattttgatgctttttattttccataaaaaagGCTGATGCAGATGGCAATGGAACCATTGACTATGATGAGTTTATCACGGCAACAATGCACCTGAACAGAATGGACAAAGAAGACCATCTTTACACAGCCT
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gtgagtcctcatagtgaagctacaaacttagttcagttcg-----agatgaaatgctaaaact---------gacaggactcctggaaattc-----ctttcaactttc--------agGCTGATGCTGATGGCAATGGAATTATCGACTATGAGGAGTTCGTCACCGCGACAGTGCACATGAACAAAATGGATCGAGAAGAGCACCTTTACACGGCAT
upper sequence: Vv06s0009g03150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g59360.1 (Oryza sativa), 3'ss of exon 5
gtaagttctcaccccccaaaaatgatctcagtgaagttcttttgcagattacatgtaaattttttcg-atttcagctgtcactct-aataattttgatgct---ttttattttccataaaaaagGCTGATGCAGATGGCAATGGAACCATTGACTATGATGAGTTTATCACGGCAACAATGCACCTGAACAGAATGGACAAAGAAGACCATCTTTACACAGCCT
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gtaagtgtgcacactctcttgggggctttggct---tttctttgtatccgagttgtgatctgctacatggtataggtgcaatgcttaatcactgcaatgttaaattttgttgcgaaatattcagGCCGACGCGGACGGGAACGGAACCATCGATTACGACGAGTTCATCACAGCGACGATGCACATGAACAGGATGGACAGAGAGGAGCATCTTTACACCGCGT
upper sequence: Vv06s0009g03150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os12g03970.1 (Oryza sativa), 3'ss of exon 3
gtaagttctcaccccccaaaaatgatctcagtgaagttcttttgcagattacatgtaaattttttcgatttcagctgtcactctaataattttgatgctttttattttccataaaaaagGCTGATGCAGATGGCAATGGAACCATTGACTATGATGAGTTTATCACGGCAACAATGCACCTGAACAGAATGGACAAAGAAGACCATCTTTACACAGCCT
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gtgagtcctcatagtgaagctacaaacttc----agttcagttcgagatgaaatgctaaaact---------gacaggactcctggaaattc-----ctttcaactttc--------agGCTGATGCTGATGGCAATGGAATTATCGACTATGAGGAGTTCGTCACCGCGACGGTGCACATGAACAAAATGGATCGAGAAGAGCACCTTTACACGGCAT
upper sequence: Vv06s0009g03150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G08140.1 (Glycine max), 3'ss of exon 5
gtaagttctcaccccccaaaaatgatctcagtgaagttcttttgcagattacatgtaaattttttcgatttcagctgtcactctaataattttgatgctttttattttccataaa--aaagGCTGATGCAGATGGCAATGGAACCATTGACTATGATGAGTTTATCACGGCAACAATGCACCTGAACAGAATGGACAAAGAAGACCATCTTTACACAGCCT
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----------------gtaagttgttcttaacaaaaaaaaggcaccaatttca-atattagttctagat---aacaatcatt-tacaaacatggattttctgattcttctacaaattacagGCTGATGCTGATGGCAATGGAACCATTGATTACGACGAGTTCATCACCGCAACAATGCACATGAACAGAATGAACAGAGAAGAACATCTTTACACTGCCT
upper sequence: Vv06s0009g03150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G36000.1 (Glycine max), 3'ss of exon 5
gtaagttctcaccccccaaaaatgatctcagtgaagttcttttgcagattacatgtaaattttttcgatttcagctgtcactctaataattttgatgctttttattttccataaa--aaagGCTGATGCAGATGGCAATGGAACCATTGACTATGATGAGTTTATCACGGCAACAATGCACCTGAACAGAATGGACAAAGAAGACCATCTTTACACAGCCT
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gtaagttattcttcaccaaaaa--accatagca-----------ccaatttca-gtagtacttctagatc---actgttatt-tacagacatggattttctcattcttctacaaattacagGCTGATGCTGATGGCAATGGAACCATTGATTACGACGAGTTCATCACCGCAACAATGCAAATGAACAGAATGAACAGAGAAGAACATCTTTATACTGCCT
upper sequence: Vv06s0009g03150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G04010.1 (Glycine max), 3'ss of exon 5
gtaagttctcaccccccaaaaatgatctcagtgaagttcttttgcagattacatgtaaattttttcgatttcagctgtcactctaataattttgatgctttttattttccataaaaaagGCTGATGCAGATGGCAATGGAACCATTGACTATGATGAGTTTATCACGGCAACAATGCACCTGAACAGAATGGACAAAGAAGACCATCTTTACACAGCCT
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gtaagttatctctccttttcaaagtactgcatatgacaaaataacttcccagcagtaa-tttctctgatgccattacttaagactatatattctttattttcc-ttctgtatattacagGCAGATGCTGATGGCAACGGAACCATAGATTATGATGAATTCATTACTGCAACAATGCACATGAACCGAATGAACAAAGAAGATCATCTTTATACTGCCT
upper sequence: Vv06s0009g03150.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G44720.1 (Glycine max), 3'ss of exon 5
gtaagttctcaccccccaaaaatgatctcagtgaagttcttttgcagattacatgtaaattttttcgatttcagctgtcactctaataattttgatgctttttattttccataaaaaagGCTGATGCAGATGGCAATGGAACCATTGACTATGATGAGTTTATCACGGCAACAATGCACCTGAACAGAATGGACAAAGAAGACCATCTTTACACAGCCT
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gtaagttatctctccttttcaaaatactgcatatgacaaaatagcttcccggcagtaa-tttttctgat----gccattacttagactattttctt-ttttcccttctgtatattacagGCAGATGCTGATGGCAATGGAACCATAGATTACGATGAATTCATTACAGCAACAATGCACATGAACCGAATGAACAAAGAAGATCATCTTTATACTGCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcgatttcagctgtcactctaataattttgatgctttttattttccataaaaaagGCTGATGCAGATGGCAATGGAACCATTGACTATGATGAGTTTATCACGGCAACAATGCACCTGAACAGAATGGACAAAGAAGACCATCTTTACACAGCCT
tgctttttattttcc CT-rich tract
taataattttgatgct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttctcaccccccaaaaatgatctcagtgaagttcttttgcagattacatgtaaattttttcgatttcagctgtcactctaataattttgatgctttttattttccataaaaaagGCTGATGCAGATGGCAATGGAACCATTGACTATGATGAGTTTATCACGGCAACAATGCACCTGAACAGAATGGACAAAGAAGACCATCTTTACACAGCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG