Sequence
atgc intronic sequence ATGC exonic sequence...tattttttctatggtgcattctaacagcattatatctttttgtttattttgatgtcgattgatagtgagccaactgtcttgccatttcttgattcttcagTTAGTGTGAGTGAAGTTGAAGCACTATTTGAGCTATTCAAGAGCATTAGTAGTTCTGTAATTGATGATGGGTTAATAAACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0236g00150.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G107575_T01 (Zea mays), 3'ss of exon 1
---tattttttctatggtgcattctaacagcattatatctttttgtttattttgatgtcgattgatagtgagccaactgtcttgccatttcttgattcttcagTTAGTGTGAGTGAAGTTGAAGCACTATTTGAGCTATTCAAGAGCATTAGTAGTTCTGTAATTGATGATGGGTTAATAAACAAG
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gagcactggatgcatgctgcatgattcttgcgttttctgtaatttctaaatttccc-tcactagat--ctagctaagtacgtgcttttgttttgcttctgtagTCAGCGTTAGTGAGGTTGAGGCTCTATTCGAGCTGTTCAAGAGCATAAGTGGTTCGGTGATTGATGATGGCCTGATCAACAAG
upper sequence: Vv02s0236g00150.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G05580.1 (Glycine max), 3'ss of exon 2
tattttttctatggtgcattc-taacagcatta-tatctttttgtttattttgatgtc-gattgatagtgagccaactgtcttgccatttcttgattcttc-------agTTAGTGTGAGTGAAGTTGAAGCACTATTTGAGCTATTCAAGAGCATTAGTAGTTCTGTAATTGATGATGGGTTAATAAACAAG
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--------tagtgatgcatttgctataaaattgctctgtctctatttctccatatgttagctttgtagttta--aactcgtgtatcatttttttgttttccccttcccagTTACTGTCAGTGAGGTTGAAGCACTGTTTGAGCTTTTTAGGAGCATCAGCAGTTCTGTTGTCGATGACGGACTGATAAGCAAG
upper sequence: Vv02s0236g00150.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G17615.2 (Arabidopsis thaliana), 3'ss of exon 2
tattttttctatggtgcattctaacagcattatatctttttgtttattt-tgatgtcgattgatagtgagccaactgtcttgcca---tttcttgattcttcagTTAGTGTGAGTGAAGTTGAAGCACTATTTGAGCTATTCAAGAGCATTAGTAGTTCTGTAATTGATGATGGGTTAATAAACAAG-----------------
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----ctaaatgtgaattattagtctctttgtttgtttgtttgtttgttcctggtaattctttgttttgatctcgtagtgttgcttgtttttttctcttttccagTTAGTGTGAGTGAGGTTGAAGCATTATTTGAGCTATTCAAGAGCATAAGCAGTTCGGTTGTTGATGATGGTCTGATTAACAAGGTACAAAGTTTGTTTCT
upper sequence: Vv02s0236g00150.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G17615.1 (Arabidopsis thaliana), 3'ss of exon 2
tattttttctatggtgcattctaacagcattatatctttttgtttattt-tgatgtcgattgatagtgagccaactgtcttgc---catttcttgattcttcagTTAGTGTGAGTGAAGTTGAAGCACTATTTGAGCTATTCAAGAGCATTAGTAGTTCTGTAATTGATGATGGGTTAATAAACAAG
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----ctaaatgtgaattattagtctctttgtttgtttgtttgtttgttcctggtaattctttgttttgatctcgtagtgttgcttgtttttttctcttttccagTTAGTGTGAGTGAGGTTGAAGCATTATTTGAGCTATTCAAGAGCATAAGCAGTTCGGTTGTTGATGATGGTCTGATTAACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttgatgtcgattgatagtgagccaactgtcttgccatttcttgattcttcagTTAGTGTGAGTGAAGTTGAAGCACTATTTGAGCTATTCAAGAGCATTAGTAGTTCTGTAATTGATGATGGGTTAATAAACAAG
tcttgat putative branch site (score: 4)
tttcttgattcttc CT-rich tract
attgata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattttttctatggtgcattctaacagcattatatctttttgtttattttgatgtcgattgatagtgagccaactgtcttgccatttcttgattcttcagTTAGTGTGAGTGAAGTTGAAGCACTATTTGAGCTATTCAAGAGCATTAGTAGTTCTGTAATTGATGATGGGTTAATAAACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA