Sequence
atgc intronic sequence ATGC exonic sequencegtatcaccattcttattttggatattttcttagatattttaccaattcacatgctcaatataggacctaaacctgatcaatatatgtccttgagcatcagtatttcatttgctcaacttcatgatctgttgtttgcagACTGTTGCCCTAGTTGGAGAGAGTGGTAGTGGGAAGTCGACAGTAATCAGCCTAATAGAGAGGTTCTACAACCCTGAATCGGGTCGTATACTACTGGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g02540.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os01g50080.1 (Oryza sativa), 3'ss of exon 9
gtatcaccattcttattttggatattttcttagatattttaccaattcacatgctcaata-taggacctaaacctgatcaatatatgtccttgagcatcagtatttcatttgctcaacttca-tgatctgttgtttgcagACTGTTGCCCTAGTTGGAGAGAGTGGTAGTGGGAAGTCGACAGTAATCAGCCTAATAGAGAGGTTCTACAACCCTGAATCGGGTCGTATACTACTGGATG
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-------------------------------------ctttcaaatgaaaattaccaataatacaaatttctctatatttattt---tcctttataattaaacttgtactgacatgctataaaccaattgtcatatgcagACTGTTGCACTTGTTGGAGAGAGCGGCAGTGGAAAGTCCACAGTAATTGCTTTGCTGGAGCGATTCTATGACCCACATTCTGGCACAATCTCACTAGACA
upper sequence: Vv10s0003g02540.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os01g50160.1 (Oryza sativa), 3'ss of exon 11
gtatcaccattcttattttggatattttcttagatattttaccaattcacatgctcaatataggacctaaacctgatcaatatatgtccttgagcatcagtatttcatttgctcaacttcatgatctgttgtttgcagACTGTTGCCCTAGTTGGAGAGAGTGGTAGTGGGAAGTCGACAGTAATCAGCCTAATAGAGAGGTTCTACAACCCTGAATCGGGTCGTATACTACTGGATG
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------------------------------------gttatccaatttatatgcttgttgcatagt--------------tatattttct---gcattaacatatccagcaacttactatatggatt----tatgcagACCGTTGCACTTGTTGGAGAGAGTGGTAGCGGAAAGTCCACAGCAATCGCTTTGCTAGAGCGATTCTACAATCCCGAGTCAGGAACCATCTTGTTGGATG
upper sequence: Vv10s0003g02540.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AC233882.1_FGT003 (Zea mays), 3'ss of exon 13
gtatcaccattcttattttggatattttcttagatattttaccaattcacatgc-tcaatataggacctaaacctgatcaatatatgtccttgagcatcagtatttcat-ttgctcaacttca--tgatctgttgtttgcagACTGTTGCCCTAGTTGGAGAGAGTGGTAGTGGGAAGTCGACAGTAATCAGCCTAATAGAGAGGTTCTACAACCCTGAATCGGGTCGTATACTACTGGATG
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------------------------------------------caatcaaaatgagcctgaaaaagaatcaaaattagttcttgttttcacattttcctttatgttttgtactgatgaacttaaaactaaatttcatatgcagACTGTTGCACTTGTTGGAGAGAGTGGTAGTGGTAAGTCAACAATAATTTCTTTGCTCGAGAGATTCTACGATCCAGATTCTGGTACAATCTCACTGGATG
upper sequence: Vv10s0003g02540.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA13G29380.1 (Glycine max), 3'ss of exon 11
gtatcaccattcttattttggatattttcttagatattttaccaattcacatgctcaatataggacctaaacctgatcaatatatgtccttgagcatcagtatttcatttgctcaacttcatgatctgttgtttgcagACTGTTGCCCTAGTTGGAGAGAGTGGTAGTGGGAAGTCGACAGTAATCAGCCTAATAGAGAGGTTCTACAACCCTGAATCGGGTCGTATACTACTGGATG
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-------------------------tttctaatttttttttccttctaaca------attaagcttttgggttgtacaaatatactaatttgag-attgatatgataa-----caatgttgatatatgt-gtgtgtagACCGTTGCCTTGGTTGGAGAAAGTGGCAGTGGAAAATCAACAGTGATCAGCCTCTTAGAGAGATTTTACAACCCTGACTCTGGACGCATACTAATTGATG
upper sequence: Vv10s0003g02540.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA15G09680.1 (Glycine max), 3'ss of exon 12
gtatcaccattcttattttggatattttcttagatattttaccaattcacatgctcaatataggacctaaacctg-atcaatatatgtccttgagcatcagtatttcatttgctcaacttcatgatctgttgtttgcagACTGTTGCCCTAGTTGGAGAGAGTGGTAGTGGGAAGTCGACAGTAATCAGCCTAATAGAGAGGTTCTACAACCCTGAATCGGGTCGTATACTACTGGATG
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---------------------gtaatcagttac-tatttt-caggttctaataatcaa-----gctttagggctgtacaaatctacttatttgagaatatgtgatgtaactacattgttgatatatatgtc-tttatagACTGTTGCATTGGTTGGAGAAAGTGGCAGTGGAAAATCAACAGTGATCAGCCTCTTGGAGAGATTTTACAACCCTGATTCTGGACATATACTACTAGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtccttgagcatcagtatttcatttgctcaacttcatgatctgttgtttgcagACTGTTGCCCTAGTTGGAGAGAGTGGTAGTGGGAAGTCGACAGTAATCAGCCTAATAGAGAGGTTCTACAACCCTGAATCGGGTCGTATACTACTGGATG
tatttcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcaccattcttattttggatattttcttagatattttaccaattcacatgctcaatataggacctaaacctgatcaatatatgtccttgagcatcagtatttcatttgctcaacttcatgatctgttgtttgcagACTGTTGCCCTAGTTGGAGAGAGTGGTAGTGGGAAGTCGACAGTAATCAGCCTAATAGAGAGGTTCTACAACCCTGAATCGGGTCGTATACTACTGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG