Sequence
atgc intronic sequence ATGC exonic sequence...tttgatgatattgatattgatgatagtggcaagctattattaccctagatgaaatcatcatcccttgatagtttgtaatttttgtcactatgttttgcagGAAGACAAGAGGAAAATGGTTGCATCTGCTTTTGGTGAAGATCAAACTGGAGGATCTGCAACTCGCCTCACCGTTGAAGATCTTAAATATCTATTCATGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0071g00780.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G43430.1 (Glycine max), 3'ss of exon 11
-----tttgatgatattgatattgatgatagtggc-aagctattattaccctagatgaaatcatcatcccttgatagtttgtaatttttgtcactatgttttgcagGAAGACAAGAGGAAAATGGTTGCATCTGCTTTTGGTGAAGATCAAACTGGAGGATCTGCAACTCGCCTCACCGTTGAAGATCTTAAATATCTATTCATGG
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tgatatactggggtgacaaattttgtgattggggtgaagataggatgtatctg--tggaatgacaaattct-gat--ttcgtt-cttgtgttgtatcatctggcagGAAGATAAGAGAAAAATGGTTGCATCTGCTTTTGGGGAAGACCATGCTGGCGGTACTGGAACTCGCCTCACAGTAGATGATCTGAAGTATCTTTTCATGG
upper sequence: Vv10s0071g00780.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G23390.1 (Glycine max), 3'ss of exon 9
-----tttgatgatattgatattgatgatagtggc-aagctattattaccctagatgaaatcatcatcccttgatagtttgtaatttttgtcactatgttttgcagGAAGACAAGAGGAAAATGGTTGCATCTGCTTTTGGTGAAGATCAAACTGGAGGATCTGCAACTCGCCTCACCGTTGAAGATCTTAAATATCTATTCATGG
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tgatatattggggtgacaaattttgtgattggggtgaagataggatgtatctg--tcgaatgagaaattct-gat--ttcgtt-cttgtgttgtactatctggcagGACGACAAGAGAAAAATGGTTGCATCTGCTTTTGGGGAAGACCATGCTGGCGCGTCTGGAACTCGCCTTACAGTAGATGATCTGAAGTATCTTTTCATGG
upper sequence: Vv10s0071g00780.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G50410.1 (Arabidopsis thaliana), 3'ss of exon 10
tttgatgatattgatattgatgatagtggcaagctattattaccctagatgaaatcatcatcccttgatagtttgtaatttttgtcactatgttttgcagGAAGACAAGAGGAAAATGGTTGCATCTGCTTTTGGTGAAGATCAAACTGGAGGATCTGCAACTCGCCTCACCGTTGAAGATCTTAAATATCTATTCATGG
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---------gtaaagatcccttatagctgatacttgtttcccccctc-----agtttctctcatttgtggttgtgtgatttttg--gttat-tattatagGAAGAGAAAAGAAAAATGGTTGCGTCTGCCTTTGGTGAAGATCATGGTGGAAGCTCTGCAACTCGATTAACAGTTGATGATCTCAAATATCTATTCATGG
upper sequence: Vv10s0071g00780.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G20010.1 (Arabidopsis thaliana), 3'ss of exon 9
-------------------------------------------------------tttgatgatattgatattgatgatagtg---gcaagcta-ttattaccct-agatgaaatcatcatcccttgatagtttgtaatttttgtcacta------tgttttgcagGAAGACAAGAGGAAAATGGTTGCATCTGCTTTTGGTGAAGATCAAACTGGAGGATCTGCAACTCGCCTCACCGTTGAAGATCTTAAATATCTATTCATGG
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gtattctctaaactctatctgctcattgtcgctgggttttgggttcccttggtttccttttcagatttatatttacagtaattttttcaagctaattactaaagagagtttttgtggtagactatgaagggcttatgaattttctcgtttaccatttttttttcagGAAGAGAAAAGGACAATGGTTGCATCGGCCTTTGGTGAAGAACATGGTGGAAGCTCTGCGACACGTCTAACAGTAGACGATCTCAAGTATCTGTTTATGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagatgaaatcatcatcccttgatagtttgtaatttttgtcactatgttttgcagGAAGACAAGAGGAAAATGGTTGCATCTGCTTTTGGTGAAGATCAAACTGGAGGATCTGCAACTCGCCTCACCGTTGAAGATCTTAAATATCTATTCATGG
ccttgat putative branch site (score: 5)
atagtttgtaattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgatgatattgatattgatgatagtggcaagctattattaccctagatgaaatcatcatcccttgatagtttgtaatttttgtcactatgttttgcagGAAGACAAGAGGAAAATGGTTGCATCTGCTTTTGGTGAAGATCAAACTGGAGGATCTGCAACTCGCCTCACCGTTGAAGATCTTAAATATCTATTCATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - -ggcaagc
- - - - - - - - - - - - - - - - - - - - tacccta
- - - - - - - - - - - - - - - - - - - - - - - - - gaaatca