Sequence
atgc intronic sequence ATGC exonic sequencegtacttcactgttttccagttgcttttagcaataaatcccttcacctgtcttattgtttcgtcaggactctaaattatttccttagctcccaatagtcctctttttgaacttcatatagcggatttttattttctactttataaactacagGTGGTCAAGCAAAGACTCTTATGTTTGTGCAGCTTAATCCTGATGTGAATTCATTTTCTGAAACTGCAAGTACTTTGAAATTTGCTGAGAGGGTTTCTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g03700.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os01g54080.1 (Oryza sativa), 3'ss of exon 17
gtacttcactgttttccagttgcttttagcaataaatcccttcacctgtcttattgtttcgtcaggactctaaattatttccttagctcccaatagtcctctttttgaacttcatatagcggatt-tttattttctactttataaactacagGTGGTCAAGCAAAGACTCTTATGTTTGTGCAGCTTAATCCTGATGTGAATTCATTTTCTGAAACTGCAAGTACTTTGAAATTTGCTGAGAGGGTTTCTGG
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-------------------------------------------------------------------------gtaacata--tagttgttgatagatgtgtacgtgga-taggcttactagtttgcctaacttatgcgctttc--ttgtagGTGGACAAGCAAAGACACTAATGTTTGTTCAAATAAACCCTGATATTGAATCATATTCAGAAACCATAAGTACTTTAAAATTTGCTGAAAGGGTTTCTGG
upper sequence: Vv17s0000g03700.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G173700_T01 (Zea mays), 3'ss of exon 14
gtacttcactgttttccagttgcttttagcaataaatcccttcacctgtcttattgtttcgtcaggactctaaattatttccttagctccca-atagtcctctttttgaacttcatatagcggatttttattttctactttataaactacagGTGGTCAAGCAAAGACTCTTATGTTTGTGCAGCTTAATCCTGATGTGAATTCATTTTCTGAAACTGCAAGTACTTTGAAATTTGCTGAGAGGGTTTCTGG
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------------------------------------------------------------------gtaatcaaatatttatttactacctagatgttaaatatattaatgtttatcttccaaatttt-atgtaccttttattttcttccagGTGGACAAGCAAAAACTCTAATGTTTGTTCAGATAAATCCTGATGTTGAGTCATATTCAGAAACTATAAGTACTTTAAAGTTTGCTGAAAGGGTGTCTGG
upper sequence: Vv17s0000g03700.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G093391_T01 (Zea mays), 3'ss of exon 2
gtacttcactgttttccagttgcttttagcaataaatcccttcacctgtcttattgtttcgtcaggactctaaattatttccttagctcccaatagtcctctttttgaacttcatatagcggatttttattttctactttataaactacagGTGGTCAAGCAAAGACTCTTATGTTTGTGCAGCTTAATCCTGATGTGAATTCATTTTCTGAAACTGCAAGTACTTTGAAATTTGCTGAGAGGGTTTCTGG
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----------------------------------------------------------------------------gtgcttaccattgctgattgttctatatactatttacatgttatcagtt---atctaatatttt-tcatctgcagGCGGCCATGCAAAAACCTTGATGTTTGTGCAGATCAACCCAGATGTCTCATCTTATTCGGAGACTTTAAGTACTTTGAAGTTTGCTGAAAGGGTTTCTGG
upper sequence: Vv17s0000g03700.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 13
--------gtacttcactgttttccagttgcttttagcaataaatcccttcacctgtcttattgtttcgtcaggactctaaattatt--tccttagctcccaatagtcctctt---tttgaacttcatatagcggatttttatt--------ttctactttataaac----------------tacagGTGGTCAAGCAAAGACTCTTATGTTTGTGCAGCTTAATCCTGATGTGAATTCATTTTCTGAAACTGCAAGTACTTTGAAATTTGCTGAGAGGGTTTCTGG
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gtaaaatcatagtttatcatttcttaccttgccttgctagtatctaacacttcatgtcttgccttgctagtatgcacaaaagtgaaaaatccttgagtttctttatgtcttttggacttgtattctataccactatttctgattagataagattccatttgaaacatatgtttaattttattgcacagGTGGTCAGGCCAAGACACTCATGTTAGTCCAAATTAATTCAGATTTAAAGTCTTTTTCTGAATCTCTAAGTACTTTAAAGTTTGCTGAGAGGGTTTCTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctctttttgaacttcatatagcggatttttattttctactttataaactacagGTGGTCAAGCAAAGACTCTTATGTTTGTGCAGCTTAATCCTGATGTGAATTCATTTTCTGAAACTGCAAGTACTTTGAAATTTGCTGAGAGGGTTTCTGG
atttttattttctact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttcactgttttccagttgcttttagcaataaatcccttcacctgtcttattgtttcgtcaggactctaaattatttccttagctcccaatagtcctctttttgaacttcatatagcggatttttattttctactttataaactacagGTGGTCAAGCAAAGACTCTTATGTTTGTGCAGCTTAATCCTGATGTGAATTCATTTTCTGAAACTGCAAGTACTTTGAAATTTGCTGAGAGGGTTTCTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG