Sequence
atgc intronic sequence ATGC exonic sequence...tgaacctgtctttttactatgttataaagggcagttggtgttggtcttttcatgtctgttcttcatgaatatctaaatattctatttatctttgttgcagAAGCTTTGTGATAATGATCCTGGAGTCATGGGTGCAACACTTTGCCCTCTTTTTGACCTTATTGCAGTAGATGCCAATTCTTACAAGGATTTGGTCATCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os01g68750.1 (Oryza sativa), 3'ss of exon 1
tgaacctgtctttttactatgttataaagggcagttgg--tgttggtctttt-catgtctgttcttcatgaatat-ctaaatattctatttatctttgttgcagAAGCTTTGTGATAATGATCCTGGAGTCATGGGTGCAACACTTTGCCCTCTTTTTGACCTTATTGCAGTAGATGCCAATTCTTACAAGGATTTGGTCATCA
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----gatttccagcaactgtagcctgtggggtttcccaactgttagtgaagcacatatttgtttctcagagagatgcttagtgttgatcgctattattttgcagAGGCTCTGTGATAATGATCCTGGGGTCATGGGTGCAACTTTATGCCCCCTCTATGACCTGATTTTGGAAGATCCAAATTCGTACAAGGATTTGGTTGTTA
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 1
tgaacctgtctttttactatgttataaagggcagttggtgttggtcttttcatgtctgttc---ttcatgaatatctaaatattctatttatctttgttgcagAAGCTTTGTGATAATGATCCTGGAGTCATGGGTGCAACACTTTGCCCTCTTTTTGACCTTATTGCAGTAGATGCCAATTCTTACAAGGATTTGGTCATCA
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---acctaggttcttaaattcttgcaagatagaataactttccttatcttaatctctgcatggagcagtgatgttattaacattgttggttctttctgtgcagAGGCTCTGTGATAATGATCCAGGGGTGATGGGTGCAACTCTTTGCCCCCTCTATGACCTGATTTTGGAGGAACCAAATTCGTACAAGGATTTGGTT----
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G146697_T02 (Zea mays), 3'ss of exon 1
tgaacctgtctttttactatgttataaagggcagttggtgttggtcttttcatgtctgttct---tcatgaatatctaaatattctatttatctttgttgcagAAGCTTTGTGATAATGATCCTGGAGTCATGGGTGCAACACTTTGCCCTCTTTTTGACCTTATTGCAGTAGATGCCAATTCTTACAAGGATTTGGTCATCA
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---acctaggttcttaaattcttgcaagatagaataactttccttatcttaatctctgcatggagcagtgatgttattaacattgttggttctttctgtgcagAGGCTCTGTGATAATGATCCAGGGGTGATGGGTGCAACTCTTTGCCCCCTCTATGACCTGATTTTGGAGGAACCAAATTCGTACAAGGATTTGGTTGTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttcatgtctgttcttcatgaatatctaaatattctatttatctttgttgcagAAGCTTTGTGATAATGATCCTGGAGTCATGGGTGCAACACTTTGCCCTCTTTTTGACCTTATTGCAGTAGATGCCAATTCTTACAAGGATTTGGTCATCA
atctaaa putative branch site (score: 3)
ttctatttatcttt putative PPT
atgaatatctaaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaacctgtctttttactatgttataaagggcagttggtgttggtcttttcatgtctgttcttcatgaatatctaaatattctatttatctttgttgcagAAGCTTTGTGATAATGATCCTGGAGTCATGGGTGCAACACTTTGCCCTCTTTTTGACCTTATTGCAGTAGATGCCAATTCTTACAAGGATTTGGTCATCA
-gaacctg
- - - - - - - - - - - -ataaagg
- - - - - - - - - - - - - - - - - - -gtgttgg
- - - - - - - - - - - - - - - - - - - - - - - -tttcatg