Sequence
atgc intronic sequence ATGC exonic sequencegtaaataaaatttataggcgaaatttccggatctattaactgagtttgtattttttgtttctttttcctttattttttgcttgattatcttggataattttgcttacagAGGTTAGCAGAAACTTTGGATGCTGATGTCAAGAGATGGTCAAGTGGAAAAGAAGGGAACCTGCGTGCATTGCTTTCAACATTGCAATAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g02070.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g44310.1 (Oryza sativa), 3'ss of exon 5
gtaaataaaatttataggcgaaatttccggatctattaactgagtttgtattttttgtttctttttcctttattttttgcttgattatcttggataattttgcttacagAGGTTAGCAGAAACTTTGGATGCTGATGTCAAGAGATGGTCAAGTGGAAAAGAAGGGAACCTGCGTGCATTGCTTTCAACATTGCAATAT
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-------------------gtaatacatgtagtagttagaaaaaaaaaaggtttttgttgttttgcaaaat-ccttctattctaaaatcatgtctctttttg--tacagAGATTAGCTGAATACCTTGACCCCGAAGTCAAGAGATGGTCAAATGGAAAGGAAGGAAATCTGCGAGCATTGCTATCTACATTGCAATAT
upper sequence: Vv04s0023g02070.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G316635_T03 (Zea mays), 3'ss of exon 4
gtaaataaaatttataggcgaaatttccggat-ctattaactgagtttgtattttt-tgtttctttttcctttattttttgcttgattatcttggataattttgcttacagAGGTTAGCAGAAACTTTGGATGCTGATGTCAAGAGATGGTCAAGTGGAAAAGAAGGGAACCTGCGTGCATTGCTTTCAACATTGCAATAT
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-----------------gtaagatagttggtcatcaggaaagaaaaacatattcctctgtttctaaataacatttgttatccatgaacttttt----acttttggatacagAGACTGGCTGAATTTCTTGATCCTGAAGTCAAGAGATGGTCAAATGGAAAAGAAGGAAATCTGCGAGCATTGCTGTCCACATTGCAATAT
upper sequence: Vv04s0023g02070.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G06160.1 (Glycine max), 3'ss of exon 12
gtaaataaaatttataggcgaaatttccggatctattaactgagtttgtattttttgtttct---ttttcctttattttttgcttgattatcttggataatt-ttgcttacagAGGTTAGCAGAAACTTTGGATGCTGATGTCAAGAGATGGTCAAGTGGAAAAGAAGGGAACCTGCGTGCATTGCTTTCAACATTGCAATAT
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------------------------gtgagcttatatccaaacagttgctctttttagcttctgaattgttgtttccacttttgttgattactccagtctgttactctttgcagAGATTAGCAGAAACTCTGGATACTGAAGTCCGGAGGTGGTCAAGTGGAAAAGAAGGAAACCTGCGTGCATTACTTTCAACCTTGCAATAT
upper sequence: Vv04s0023g02070.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G25190.1 (Glycine max), 3'ss of exon 7
gtaaataaaatttataggcgaaatttccggatctattaactgagtttgtattttttgtttctttttcctttattttttgcttgattatcttggataattttgcttacagAGGTTAGCAGAAACTTTGGATGCTGATGTCAAGAGATGGTCAAGTGGAAAAGAAGGGAACCTGCGTGCATTGCTTTCAACATTGCAATAT
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-------------gtgagctta-tatccaaac--agttattcattttagcttctcaattgttgtttacacattttgttgcttactccagtgtgatactct-----gcagAGATTAGCAGAAACCCTGGATACTGAAGTCAGGAGGTGGTCAAGTGGAAAAGAAGGAAATTTGCGTGCATTACTTTCAACCTTGCAATAT
upper sequence: Vv04s0023g02070.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G25150.1 (Glycine max), 3'ss of exon 5
gtaaataaaatttataggcgaaatttccggatctattaactgagtttgtattttttgtttctttttcctttattttttgcttgattatcttggataattttgcttacagAGGTTAGCAGAAACTTTGGATGCTGATGTCAAGAGATGGTCAAGTGGAAAAGAAGGGAACCTGCGTGCATTGCTTTCAACATTGCAATAT
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-------------gtgagctta-tatccaaac--agttgttctttttagcttctcaattgttgtttacacattttgttgcttactccagTGTGATACTCT-----GCAGAGATTAGCAGAAACCCTGGATACTGAAGTCAGGAGGTGGTCAAGTGGAAAAGAAGGAAATTTGCGTGCATTACTTTCAACCTTGC-----
upper sequence: Vv04s0023g02070.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G07550.1 (Glycine max), 3'ss of exon 10
gtaaataaaatttataggcgaaatttccggatctattaactgagtttgtattttttgtttctttttcctttattttttgcttgattatcttgga-taattttgcttacagAGGTTAGCAGAAACTTTGGATGCTGATGTCAAGAGATGGTCAAGTGGAAAAGAAGGGAACCTGCGTGCATTGCTTTCAACATTGCAATAT
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------caggctgaaag---aaatgtaagtactcattcatataattttt-ctgtgtataaattggtgtttctgtgtttcattgattactcaagtctggtgctgtttgcagAGGCTATCCGAGACTCTGGATGCTGAAGTAAGGAGATGGTCAGGTGGAAAAGAAGGAAACTTGCGTGCCTTACTTTCTACCTTGCAATAT
upper sequence: Vv04s0023g02070.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G37760.2 (Glycine max), 3'ss of exon 5
gtaaataaaatttataggcgaaatttccggatctat-taactgagtttgtattttttgtttctttttcctttattttttgcttgatta-tcttggataattttgcttacagAGGTTAGCAGAAACTTTGGATGCTGATGTCAAGAGATGGTCAAGTGGAAAAGAAGGGAACCTGCGTGCATTGCTTTCAACATTGCAATAT
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-------------------gtaagtactc-atctatataatt---tttctgtgtataaattggtgtttctgtgtttcat---tgattactcaagtctggtgctgtttgcagAGACTGTCAGAGACTCTGGATGCTGAAGTAAGGAGGTGGTCAGGTGGAAAAGAAGGAAACTTGCGTGCCTTACTTTCTACCTTGCAATAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtttctttttcctttattttttgcttgattatcttggataattttgcttacagAGGTTAGCAGAAACTTTGGATGCTGATGTCAAGAGATGGTCAAGTGGAAAAGAAGGGAACCTGCGTGCATTGCTTTCAACATTGCAATAT
gcttgat putative branch site (score: 5)
ttttgctt putative PPT
tttttcctttattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaataaaatttataggcgaaatttccggatctattaactgagtttgtattttttgtttctttttcctttattttttgcttgattatcttggataattttgcttacagAGGTTAGCAGAAACTTTGGATGCTGATGTCAAGAGATGGTCAAGTGGAAAAGAAGGGAACCTGCGTGCATTGCTTTCAACATTGCAATAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG