Sequence
atgc intronic sequence ATGC exonic sequencegtaagtttcttcgcccaaattattgtatttgggctactattatttttcacaaagtaattaaccttgtattctcttcctaattgaatacatcaatgcatttttctttcctttctttttctagAATTCAGTCAATGCTCGAGAATGTAAAATTCCATATCCATGGCTAGTTTTCAATGAGAAGATAAAAGTAAATTCTGTTTTTCTCCGGGATTCAACAGCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g04360.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: LOC_Os01g02884.1 (Oryza sativa), 3'ss of exon 10
gtaagtttcttcgcccaaattattgtatttgggctactattatttttca-caaagtaattaaccttgtattctcttcc--taattgaatacatcaatgcatttt----tctttcctttctttttctagAATTCAGTCAATGCTCGAGAATGTAAAATTCCATATCCATGGCTAGTTTTCAATGAGAAGATAAAAGTAAATTCTGTTTTTCTCCGGGATTCAACAGCTG
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------------------gtaagttagatctagttatcatcactggtgatcaacctatgttgctttgttatttctaccaatggatgtatgcgagaaagtatcatctaattggtttttgttgttttcagAGTTCAGTCAATGGAAAAGAAACCAAGATTCCCTTCCCCTGGCTGGTGTTCAATGAGAAGGTGAAGGTGAATTCTGTTTTTCTCCGGGACTCAACGGCTA
upper sequence: Vv01s0011g04360.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GRMZM2G373175_T01 (Zea mays), 3'ss of exon 16
gtaagtttcttcgcccaaattattgtatttgggctactattatttttcacaaagtaattaaccttgtattctcttcctaattgaatacatcaatgcatttttctttcctttctttttctagAATTCAGTCAATGCTCGAGAATGTAAAATTCCATATCCATGGCTAGTTTTCAATGAGAAGATAAAAGTAAATTCTGTTTTTCTCCGGGATTCAACAGCTG
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--------------------------------------gtaagtttttgtgttctacataactttgatatatatcagtggctttacgtgacagt----ttcatttatgttatcttttccagAGTTCAGTTAATGGTAAAGAAACCAAGATTCCATTCCCCTGGCTAGTTTTCAATGAGAAGGTGAAAGTGAATTCTGTTTTCCTCCGGGATTCAACTGCTA
upper sequence: Vv01s0011g04360.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA09G18490.1 (Glycine max), 3'ss of exon 11
gtaagtttcttcgcccaaattattgtatttggg--ctactattatttttcacaaagtaatt-aaccttgtattct-cttcctaattgaatacatcaatgcatttt------------tctttcctttctttttctagAATTCAGTCAATGCTCGAGAATGTAAAATTCCATATCCATGGCTAGTTTTCAATGAGAAGATAAAAGTAAATTCTGTTTTTCTCCGGGATTCAACAGCTG
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----gttagtccattcaaatcattataatttacttctggtattgaaactgaataattactcgagttttataagctatcttttgattttgtttgtttgtttgttttgacctcaacccacatttattttatttgactagAATTCAGTGAATGCTCGGGAAACTAGAATTCCATATCCATGGGTAGTTTTTAATGAGAAGATAAAAGTGAACTCTGTATTTCTTCGTGACTCAACAGCTG
upper sequence: Vv01s0011g04360.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA20G25800.1 (Glycine max), 3'ss of exon 19
gtaagtttcttcgcccaaattattgtatttgggctactattatttttcac--aaagtaatt------aaccttgtat-tctcttcctaattgaatacatcaatgcatttttctt-----------tcctttc-tttttctagAATTCAGTCAATGCTCGAGAATGTAAAATTCCATATCCATGGCTAGTTTTCAATGAGAAGATAAAAGTAAATTCTGTTTTTCTCCGGGATTCAACAGCTG
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----gttagtccattcaaacctttataatttgctgctggttgtgaaacatttaaaataattctcttaaggtttttatgttcccttttggtttattttttttttgctttccttttaaatcaaatcttcatttcatttgcctagAACTCAGTGAATGCTCAGGAAACTAAAATTCCGTATCCATGGCTAGTTTTTAATGAGAAGATAAAAGTGAACTCAGTTTTTCTTCGTGACTCAACAGCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattctcttcctaattgaatacatcaatgcatttttctttcctttctttttctagAATTCAGTCAATGCTCGAGAATGTAAAATTCCATATCCATGGCTAGTTTTCAATGAGAAGATAAAAGTAAATTCTGTTTTTCTCCGGGATTCAACAGCTG
tcctaat putative branch site (score: 2)
tcaatgcatttttctt putative PPT
taattgaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtttcttcgcccaaattattgtatttgggctactattatttttcacaaagtaattaaccttgtattctcttcctaattgaatacatcaatgcatttttctttcctttctttttctagAATTCAGTCAATGCTCGAGAATGTAAAATTCCATATCCATGGCTAGTTTTCAATGAGAAGATAAAAGTAAATTCTGTTTTTCTCCGGGATTCAACAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG