Sequence
atgc intronic sequence ATGC exonic sequencegtgactagcaatttaaattgtttaaacttttgttctaatgaaaaattttctgttatttttatcgttataataagttcctgtgcatttcatattttaaagaagaaagagtttacaatagggtgtttatatttggttgggcatgtacaaggaattattcagatcaaacatgtaaataattgtgtaatttttcagGCTATTGATCCTAGAACTCGCATGGTTTTATTCAAAATGCTGAATCGAGGTGTGTTCCATGATATTAACGGCTGCATTTCAACTGGAAAAGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G166018_T01 (Zea mays), 3'ss of exon 2
gtgactagcaatttaaattgtttaaacttttgttctaatgaaaaattttctgttatttttatcgttataataagttcctgtgcatttcatattttaaagaagaaagagtttacaatagggtgtttatatttggttgggcatgtacaaggaattattcagatcaaacatgtaaataattgtgtaatttttcagGCTATTGATCCTAGAACTCGCATGGTTTTATTCAAAATGCTGAATCGAGGTGTGTTCCATGATATTAACGGCTGCATTTCAACTGGAAAAGAA-------
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----------------------------------------------------------------------------------------ttgtcttaaaaataggtgagttgccttaccgaaatctaatgaaggtt----atttcaattgaaccattttctgaacactgaatgttttttgtttgaatatgcagGCTATTGACCCAAGAACACGCATGGTTTTATTCAAGATGTTAAACCGTGGTGTCTTTAATAACATAAATGGCTGCATTTCTACAGGGAAAGAGGTAGCTT
upper sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G035098_T01 (Zea mays), 3'ss of exon 4
gtgactagcaatttaaattgtttaaacttttgttctaatgaaaaattttctgttatttttatcgttataataagttcctgtgcatttcatattttaaagaagaaagagtttacaatagggtgtttatatttggttgggcatgtacaaggaattattcagatcaaacatgtaaataattgtgtaatttttcagGCTATTGATCCTAGAACTCGCATGGTTTTATTCAAAATGCTGAATCGAGGTGTGTTCCATGATATTAACGGCTGCATTTCAACTGGAAAAGAA
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----------------------------------------------------------------------------------------------------------------------------------------gttatttcaattgaaccattttctgaacactgaatgttttttgtttgaatatgcagGCTATTGACCCAAGAACACGCATGGTTTTATTCAAGATGTTAAACCGTGGTGTCTTTAATAACATAAATGGCTGCATTTCTACAGGGAAAGAG
upper sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G120329_T01 (Zea mays), 3'ss of exon 2
gtgactagcaatttaaattgtttaaacttttgttctaatgaaaaattttctgttatttttatcgttataataagttcctgtgcatttcatattttaaagaagaaagagtttacaatagggtgtttatatttggt--tgggcatgtacaaggaattattcagatcaaacatgtaaataattgtgtaatttttcagGCTATTGATCCTAGAACTCGCATGGTTTTATTCAAAATGCTGAATCGAGGTGTGTTCCATGATATTAACGGCTGCATTTCAACTGGAAAAGAA
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------------------------------------------------------------------------------------------gtcttaaa----aataggtgtgagttggcttaccgaaatctaatgaaggttatttcaattgaaccattttctgaacactgaatgttttttgtttgaatatgcagGCTATTGACCCAAGAACACGCATGGTTTTATTCAAGATGTTAAACCGTGGTGTCTTTAATAACATAAATGGCTGCATTTCTACAGGGAAAGAG
upper sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 2
gtgactagcaatttaaattgtttaaacttttgttctaatgaaaaattttctgttatttttat-cgttataataagttcctgtgcatttcatattttaaagaagaa-agagtttacaatagggtgtttatatttggttgggcatgtacaaggaattattcagatcaaacatgtaaataattgtgtaatt--tttcagGCTATTGATCCTAGAACTCGCATGGTTTTATTCAAAATGCTGAATCGAGGTGTGTTCCATGATATTAACGGCTGCATTTCAACTGGAAAAGAA
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gtgagtggtggtt---atttcatgaaatccggtactta-----aatttctttttatttatatatatgattttgttctccataaaagaaaagaaattgtacatgttcagaattcagacagatatgtacgagccttattt--ttttgctgatgtttttttaacaattactatgcaagtaactctaaagtttcttccagGCAATTGATCCTAGAACTCGCATGGTTTTATTTAAGATGCTGAACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAA
upper sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G46440.1 (Glycine max), 3'ss of exon 2
gtgactagcaatttaaattgtttaaacttttgttctaatgaaaaattttctgttatttttatcgttataataagttcct-gtgcatttcatattttaaagaagaa-agagtttacaatagggtgtttatatttggttgggcatgtac-aaggaattattcagatcaaacatgtaaataattgtgtaattt--ttcagGCTATTGATCCTAGAACTCGCATGGTTTTATTCAAAATGCTGAATCGAGGTGTGTTCCATGATATTAACGGCTGCATTTCAACTGGAAAAGAA
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---gtgagtgatggtgatttcatgaaatccagtactta------aatatcttttttttttattatttgattttcttcttcataaagagaagaatttgtacctgttcatagttcaaacagacatgtatgagccttatt---cttttgctgatgccttttctaccattactatgcaagtaactccaaagtttcctccagGCAATTGATCCTAGAACGCGCATGGTCTTATTCAAGATGCTGAACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAA
upper sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S191_78V6.1 (Physcomitrella patens), 3'ss of exon 3
gtgactagcaatttaaattgtttaaacttttgttctaatgaaaaattttctgttatttttatcgttataataagttcctgtgcatttcatattttaaagaagaaagagtttacaatagggtgtttatatttggttgggcatgtacaaggaattattcagatcaaacatgtaaataattgtgtaatttttcagGCTATTGATCCTAGAACTCGCATGGTTTTATTCAAAATGCTGAATCGAGGTGTGTTCCATGATATTAACGGCTGCATTTCAACTGGAAAAGAA
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-----------------------------------------------------------gtgagttgatttccttttctaggatttgtagattctagtcgtgaaggtgtt------acgctgtggacttttcattgaacct---------attgttgaattc--tcttttgcatgctttt-catgctgacagGCCCTTGATCCTAGGACGCGAATGGTCTTATTTAAGATGCTGAATCGTGGAGTGTTCAAGGAGCTTAATGGATGCATTTCGACTGGAAAAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcatgtacaaggaattattcagatcaaacatgtaaataattgtgtaatttttcagGCTATTGATCCTAGAACTCGCATGGTTTTATTCAAAATGCTGAATCGAGGTGTGTTCCATGATATTAACGGCTGCATTTCAACTGGAAAAGAA
tttttc CT-rich tract
aaacatgtaaataatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgactagcaatttaaattgtttaaacttttgttctaatgaaaaattttctgttatttttatcgttataataagttcctgtgcatttcatattttaaagaagaaagagtttacaatagggtgtttatatttggttgggcatgtacaaggaattattcagatcaaacatgtaaataattgtgtaatttttcagGCTATTGATCCTAGAACTCGCATGGTTTTATTCAAAATGCTGAATCGAGGTGTGTTCCATGATATTAACGGCTGCATTTCAACTGGAAAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA