Sequence
atgc intronic sequence ATGC exonic sequence...gtgggttatattcctagacaatctccatctgagaaaataatggttttcatttgtacaacttatagcttctgactgaattactgatctatatgattttcagCTTTGGGACATCAATATGGATTCAGGTCCTGTTGCAACTTTTCAAGTTCATGAATATTTGAGGCCCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g02550.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 3'ss of exon 9
gtgggttatattcctagacaatctccatctgagaa-aataatggttttcatttgtacaacttatagcttc-----tgactgaattactgatctatatgatt-ttcagCTTTGGGACATCAATATGGATTCAGGTCCTGTTGCAACTTTTCAAGTTCATGAATATTTGAGGCCCAAG
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-------aaacttttatatattctgcagctgattctaatactacgtatcatataagtggtatactgcttgaaatgtcattagtccgttgctccttttctttcttcagTTATGGGATATAAACATGGATTCAGGCCCAGTTGCAACTTTCCAAGTTCATGAATATTTAAGACCTAAG
upper sequence: Vv11s0016g02550.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os06g36770.2 (Oryza sativa), 3'ss of exon 9
-----gtgggttatattcctagacaatctccatctgagaaaataatggttttcatttgtacaacttatagcttctgactgaattactgatctatatgattttcagCTTTGGGACATCAATATGGATTCAGGTCCTGTTGCAACTTTTCAAGTTCATGAATATTTGAGGCCCAAG
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tttgcatggcttatgat---gagcatatttgacttgttaataaggtaaattttag--gtaaagcggaataatttggtttgagtttaatatctgtcttttcctcagCTATGGGATCTAAACATGGATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAG
upper sequence: Vv11s0016g02550.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G069631_T01 (Zea mays), 3'ss of exon 9
-gtgggttatattcctagacaatctccatctgagaaaataatggttttcatttgtacaacttatagcttctgactgaattactgatctatatgattttcagCTTTGGGACATCAATATGGATTCAGGTCCTGTTGCAACTTTTCAAGTTCATGAATATTTGAGGCCCAAG
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tagactttgaggatcaaggaacttttggtgctctgcccttttgtgataaatatgtttatctgctagaaataattttagttaaccgtttttgtt-tctccagTTGTGGGATCTAAACATGGATTCAGGCCCAGTTGCAACTTTTCAGGTTCATGAATACTTACGTCCTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcatttgtacaacttatagcttctgactgaattactgatctatatgattttcagCTTTGGGACATCAATATGGATTCAGGTCCTGTTGCAACTTTTCAAGTTCATGAATATTTGAGGCCCAAG
tactgat putative branch site (score: 2)
ttttc putative PPT
atctatatgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgggttatattcctagacaatctccatctgagaaaataatggttttcatttgtacaacttatagcttctgactgaattactgatctatatgattttcagCTTTGGGACATCAATATGGATTCAGGTCCTGTTGCAACTTTTCAAGTTCATGAATATTTGAGGCCCAAG
gtgggtt
- - - - - - - - - - - ctccatc
- - - - - - - - - - - - - - - - -aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgactga