Sequence
atgc intronic sequence ATGC exonic sequencegtaacacccaactaataaaatgagttgacaggttttagttctgctctctcttttttgatttgcaacttgggtttgtaagGTATCTTGATGTTGCTGGAATGAAGAGGTCCGGAGCATATGTCATGAATGGGGTTGTGATTTTCTTTGCTTGGCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0028g01000.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G03520.1 (Glycine max), 3'ss of exon 5
gtaacacccaactaataaaatgagttgacaggttttagttctgctctctcttttttgatttgcaacttgggtttgt-aagGTATCTTGATGTTGCTGGAATGAAGAGGTCCGGAGCATATGTCATGAATGGGGTTGTGATTTTCTTTGCTTGGCTG
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gtaatcttgcaccta-aatatgcactc-----tatatgtcatgttatttatttactaatgcacatactgtgtttgtgaagGTATCTTGATGCAGCTGGAATGAAGAAGTCAAAAGCTTATCTCATCAATGGGGTTGTGATATTCATTGCTTGGCTG
upper sequence: Vv12s0028g01000.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G14050.1 (Glycine max), 3'ss of exon 5
gtaacacccaactaataaaatgagttgacaggttttagttctgctctctcttttttgatttgcaacttgggtttgt-aagGTATCTTGATGTTGCTGGAATGAAGAGGTCCGGAGCATATGTCATGAATGGGGTTGTGATTTTCTTTGCTTGGCTG
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gtaatctttctcttatagt-tgaattctattatgtcatataatatttttctttgttaatgttg---tggtgtttgtgaagGTATCTTGATGTAGCTGGAATGAAAAAGTCCAAAGCTTATCTCATCAATGGGGTTGTAATATTCATTTCTTGGCTG
upper sequence: Vv12s0028g01000.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G45240.3 (Glycine max), 3'ss of exon 6
gtaacacccaactaataaaatgagttgacaggttttagttctgctctctcttttttgatttgcaacttgggtttgt-aagGTATCTTGATGTTGCTGGAATGAAGAGGTCCGGAGCATATGTCATGAATGGGGTTGTGATTTTCTTTGCTTGGCTG
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gtaatcttgcacttaaatatgcactctataggtcat------gtaatttatttattaatgcacatattgtgtttgtgaagGTATCTTGATGCAGCTGGAATGAAGAAGTCAAATGCTTATCTCATCAATGGGGTTGTAATATTCATTGCTTGGCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgacaggttttagttctgctctctcttttttgatttgcaacttgggtttgtaagGTATCTTGATGTTGCTGGAATGAAGAGGTCCGGAGCATATGTCATGAATGGGGTTGTGATTTTCTTTGCTTGGCTG
ttttgat putative branch site (score: 4)
ttttttgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacacccaactaataaaatgagttgacaggttttagttctgctctctcttttttgatttgcaacttgggtttgtaagGTATCTTGATGTTGCTGGAATGAAGAGGTCCGGAGCATATGTCATGAATGGGGTTGTGATTTTCTTTGCTTGGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA