Sequence
atgc intronic sequence ATGC exonic sequence...taggggagtttctcttctctttggagtctagactgctgttatattttaaatgaccttatttctgcacaacttccatgtattgttaatttactgtctgcagATTTGCAATGCTGTTGCTGTGGCTTCTCTTCTTAATGCTACTCTAGTTCTCCCCAAATTTCTTTACAGCAATGTGTGGAAGGATCCTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g01470.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os06g35410.1 (Oryza sativa), 3'ss of exon 4
taggggagtttctcttctctttggagtctagactgctgttatattttaaatgaccttatttctgcacaacttccatgtattgttaatttactgtctgc-agATTTGCAATGCTGTTGCTGTGGCTTCTCTTCTTAATGCTACTCTAGTTCTCCCCAAATTTCTTTACAGCAATGTGTGGAAGGATCCTAG
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------------gtaaggatctagtg-ctgaaatgctcacaaaatccatactacgttattttcagattcagtagcta-atagttgaatttttatcttccagGTGTGTAATGCTGTTGTTGTTGCAGCTCTGCTTAATGCTACACTAGTCCTCCCCAGGTTTCTTTACAGCAGCGTTTGGAAGGACACAAG
upper sequence: Vv10s0003g01470.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G09080.1 (Glycine max), 3'ss of exon 3
taggggagtttctcttctctttggagtctagactgctgttatattttaaatgaccttatttctgcacaacttccatgtattg---ttaatttactgtctgcagATTTGCAATGCTGTTGCTGTGGCTTCTCTTCTTAATGCTACTCTAGTTCTCCCCAAATTTCTTTACAGCAATGTGTGGAAGGATCCTAG
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--agttgattcttatacatataataatatatgatcttttatcctttctttttgtatggtatctccaataatggaa-gtaatgagactactgtagtgattacagACTTGCAATGCTGTTGCTGTGGCATCTCTCCTTAATGCAACCCTAGTTATTCCAAAATTTCTTTACAGCAACGTGTGGAAGGATCCAAG
upper sequence: Vv10s0003g01470.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G30070.1 (Glycine max), 3'ss of exon 3
--taggggagtttctcttctctttggagtctagactgctgttatattttaaatgaccttatttctgcacaacttccatgtattgttaatttactgtctgcagATTTGCAATGCTGTTGCTGTGGCTTCTCTTCTTAATGCTACTCTAGTTCTCCCCAAATTTCTTTACAGCAATGTGTGGAAGGATCCTAG
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cgtagttgattcttatatgatcttttatcctttctttttgacatgcttttgtttggtatatccaataaaggaagtaatgag--actactatagtgattacagATTTGCAATGCTGTTGCTGTGGCATCTCTCCTTAATGCAACCTTAGTTATTCCAAAGTTTCTTTACAGCAACGTATGGAAGGATCCAAG
upper sequence: Vv10s0003g01470.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G29200.3 (Arabidopsis thaliana), 3'ss of exon 3
taggggagtttctcttctctttggagtctagactgctgttatattttaaatgaccttatttctgcacaacttccatgtattgttaatttactgtctgcagATTTGCAATGCTGTTGCTGTGGCTTCTCTTCTTAATGCTACTCTAGTTCTCCCCAAATTTCTTTACAGCAATGTGTGGAAGGATCCTAG
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---------------------gtaagtatataccaaagtaat-cattatat-atttgattcatcaagaaagtatatatagtgaatgttagtttcttgcagATCTGTAACGCTGTTGCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTTCCTCGGTTTCTTTACAGCAATGTATGGAAAGATCCTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaatgaccttatttctgcacaacttccatgtattgttaatttactgtctgcagATTTGCAATGCTGTTGCTGTGGCTTCTCTTCTTAATGCTACTCTAGTTCTCCCCAAATTTCTTTACAGCAATGTGTGGAAGGATCCTAG
tgttaat putative branch site (score: 3)
atgtattgttaattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taggggagtttctcttctctttggagtctagactgctgttatattttaaatgaccttatttctgcacaacttccatgtattgttaatttactgtctgcagATTTGCAATGCTGTTGCTGTGGCTTCTCTTCTTAATGCTACTCTAGTTCTCCCCAAATTTCTTTACAGCAATGTGTGGAAGGATCCTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - tctcttc
- - - - - - - - - - - - - - - -actgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcacaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatgta