Sequence
atgc intronic sequence ATGC exonic sequencegtagtatttttatttccttttcgtactacattgctttattggagttgatataactttttttccttcttatacgtacagTGGAGCTGTTTCGATAAAGATGAATGTGCTTCTTTATGCTCCGCCTTTATTACTCCTCATGTTGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g00130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g07720.3 (Oryza sativa), 3'ss of exon 4
------------------gtagtatttttatttccttttcg-tactacattgctttat-----tggagttga--tataactttttttccttcttatacgtacagTGGAGCTGTTTCGATAAAGATGAATGTGCTTCTTTATGCTCCGCCTTTATTACTCCTCATGTTGAAG
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gtgattaccaacaatatgatactgcatccatgtgctttaagatatcattttcattaatacttatcaatttgctttagaacttgctgaaatcactcttcctccagTGCAGCTGTCTCCATTAAGATGAATGTGCTTCTTTTTGCTCCATCGTTATTACTACTGATGCTGAAG
upper sequence: Vv07s0005g00130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G066362_T01 (Zea mays), 3'ss of exon 5
------------------------gtagtatt--tttatttccttttcgtacta-cattgctttattgga----gttgatataactttttt-----------tccttcttatacgtacagTGGAGCTGTTTCGATAAAGATGAATGTGCTTCTTTATGCTCCGCCTTTATTACTCCTCATGTTGAAG
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gtgaccatggtagtatgacagtaaatggcatttatctgcttcttctttgttttaatgtggccaagctgaaagaggtaggtggaaagtatctgctcatattcattttcctttttttttcagTGGAGCTGTCTCAATTAAGATGAATGTCCTTCTTTTTGCTCCTTCTTTGCTTCTACTTATGGTCAAG
upper sequence: Vv07s0005g00130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G39740.1 (Glycine max), 3'ss of exon 4
gtagtatttttatttccttttcgtactacattgctttattggagttgatataactt--tttttccttcttatacgtacagTGGAGCTGTTTCGATAAAGATGAATGTGCTTCTTTATGCTCCGCCTTTATTACTCCTCATGTTGAAG
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gtaa-attctctcttcctagactcttctttttaccataaggataacatgtttacgtggcttcttgtgattatttgt-tagTGGAGCTGTTTCGGTGAAGATGAATGTTCTTCTTTATGCTCCTCCTTTGTTACTCCTCATGCTGAAG
upper sequence: Vv07s0005g00130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G37130.1 (Glycine max), 3'ss of exon 4
gtagtatttttatttccttttcgtactacattgctttattggagttgatataactt--tttttccttcttatacgtacagTGGAGCTGTTTCGATAAAGATGAATGTGCTTCTTTATGCTCCGCCTTTATTACTCCTCATGTTGAAG
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gtaa-atgctctcttcctaggctcgtttttttgttgcaaggatataatgtttacgtggcttctcgtgattatttgt-tagTGGAGCTGTTTCGGTGAAGATGAATGTGCTTCTTTATGCTCCTCCTTTGCTGCTTCTCATGCTGAAG
upper sequence: Vv07s0005g00130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT2G47760.2 (Arabidopsis thaliana), 3'ss of exon 5
gtagtatttttatttccttttcgtactacattgctttattggagttgatataactttttttccttcttatacgtacagTGGAGCTGTTTCGATAAAGATGAATGTGCTTCTTTATGCTCCGCCTTTATTACTCCTCATGTTGAAG
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-------gttagattgctgcttttgcttc-tcgattctttaga-ttgactagtctgcttacccttctttt-tatacagTGGAGCTGTTTCTGTAAAGATGAATGTACTTTTGTATGCTCCAACTTTGTTACTTCTGCTACTTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tactacattgctttattggagttgatataactttttttccttcttatacgtacagTGGAGCTGTTTCGATAAAGATGAATGTGCTTCTTTATGCTCCGCCTTTATTACTCCTCATGTTGAAG
atataac putative branch site (score: 3)
ctttttttccttctta CT-rich tract
ttgatataactttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtatttttatttccttttcgtactacattgctttattggagttgatataactttttttccttcttatacgtacagTGGAGCTGTTTCGATAAAGATGAATGTGCTTCTTTATGCTCCGCCTTTATTACTCCTCATGTTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG