Sequence
atgc intronic sequence ATGC exonic sequence...atccggcttacctttctcctctcttccttgtaattgtatctgttgaattctgcataatctggagatatcaggttcctatttattggtttgctttatgtagATTCGTCCTGATCGTCAAACCCTCTATTGGAGTGCTACATGGCCCAAGGAGGTGGAACAACTTGCTAGGAAGTTCCTTTACAACCCATGTAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g02100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g10050.1 (Oryza sativa), 3'ss of exon 5
----atccggcttacctttctcctctcttccttgtaattgtatctgttgaattctg-cataatctggagatatcaggttcctatttattggtttgctttatgtagATTCGTCCTGATCGTCAAACCCTCTATTGGAGTGCTACATGGCCCAAGGAGGTGGAACAACTTGCTAGGAAGTTCCTTTACAACCCATGTAAA
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cactgcccagccataggcagagttttcctccatg-aaccgtgcctacaacataccaacattgtttt---acatagtgttaagggattaccatctgcctttt-cagATTCGTCCAGATCGCCAAACATTATATTGGAGTGCTACTTGGCCAAAGGAAGTTGAACAGCTAGCAAGGAACTTTCTTTTCGACCCATACAAG
upper sequence: Vv09s0002g02100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G143246_T01 (Zea mays), 3'ss of exon 5
------atccggcttacctttctcctctcttccttgtaattgtatctgttgaattctgcataatctggagatatcaggttcctatttattggtttgctttatgtagATTCGTCCTGATCGTCAAACCCTCTATTGGAGTGCTACATGGCCCAAGGAGGTGGAACAACTTGCTAGGAAGTTCCTTTACAACCCATGTAAA
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ttagtggtctacattgatatgccagttactttcattaatctgtgcaatataaattttg-attattgttttacgtgatgccaaaccttatctgttagttc-----agATTCGTCCAGATCGCCAAACACTTTACTGGAGTGCTACCTGGCCGAAGGAAGTTGAGCAGCTAGCAAGGAATTTCCTTTTTGACCCATACAAG
upper sequence: Vv09s0002g02100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G20670.1 (Glycine max), 3'ss of exon 5
----atccggcttacctttctcct-ctcttccttgtaattgtatctgttgaattctgcataatctggagat-atcaggttcctatttattggtttgctttatgtagATTCGTCCTGATCGTCAAACCCTCTATTGGAGTGCTACATGGCCCAAGGAGGTGGAACAACTTGCTAGGAAGTTCCTTTACAACCCATGTAAA
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attaatccaattcgatttagaaagacagattgctgaagttgcattt--taaaatttctttattctgctggtcatctgatcactttttttt----tgttttacttagATTCGTCCAGATCGTCAAACTTTGTATTGGAGTGCTACCTGGCCAAAGGAGGTTGAACAATTGGCAAGGAAGTTCCTTTATAACCCATACAAA
upper sequence: Vv09s0002g02100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G11880.1 (Glycine max), 3'ss of exon 5
-----atccggctta-cctttctcctctcttccttgtaattgtatctgttgaattctgcataatctggagatatcaggttcctatttattggtttgctttatgtagATTCGTCCTGATCGTCAAACCCTCTATTGGAGTGCTACATGGCCCAAGGAGGTGGAACAACTTGCTAGGAAGTTCCTTTACAACCCATGTAAA
|||| | | || | | || | || || | | || | | || |||| | ||| | | | || |||| ||| ||||||||||| ||||||||||| | |||||||||||||| ||||| |||||||| |||||| | || |||||||||||||| ||||||| |||
aattaatccaaatcaatctagaaatacagattgctgaagctgcattt--taaagtttctttattctgct--tgtcatatgatcactgttt--tttgtttttcttagATTCGTCCAGATCGTCAAACTTTGTATTGGAGTGCTACCTGGCCAAAGGAGGTCGAACAATTGGCAAGGAAGTTCCTTTATAACCCATACAAA
upper sequence: Vv09s0002g02100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G01260.1 (Glycine max), 3'ss of exon 5
-----atccggcttacctttctcct-ctcttccttgtaattgtatctgttgaattctgcataatctggagatatcaggttcctatttattggtttgctttatgtagATTCGTCCTGATCGTCAAACCCTCTATTGGAGTGCTACATGGCCCAAGGAGGTGGAACAACTTGCTAGGAAGTTCCTTTACAACCCATGTAAA
|||| | || | | | || | || || | | || | | || |||| | ||| | | | || |||| ||| ||||||||||| ||||||||||| | |||||||||||||| ||||| |||||||| |||||| | || |||||||||||||| ||||||| |||
aattaatccaaatcgatttagaaatacagattgctgaagctgcattt--taaagtttctttattctgct--tgtcatatgatcactgttt--tttgtttttcttagATTCGTCCAGATCGTCAAACTTTGTATTGGAGTGCTACCTGGCCAAAGGAGGTCGAACAATTGGCAAGGAAGTTCCTTTATAACCCATACAAA
upper sequence: Vv09s0002g02100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G55150.1 (Arabidopsis thaliana), 3'ss of exon 5
atccggcttacctttctcctctcttccttgtaattgtatctgttgaattctgcataatctggagatatcaggttcctatttattggtttgctttatgtagATTCGTCCTGATCGTCAAACCCTCTATTGGAGTGCTACATGGCCCAAGGAGGTGGAACAACTTGCTAGGAAGTTCCTTTACAACCCATGTAAA
| || || ||| ||||| ||||| | || | ||| ||| || || | | || ||| | || || |||| | || ||||||| || || |||||||| | || |||||||| || ||||| ||||||||||||||||| | | |||||| ||||| ||||||| |||
gttcg--tttacttactcctgtcttcgtcata--tatatgtgt---atgctagttgctttgtctataacc--tttcttttta-------aacctgtgcagATTCGGCCAGACCGTCAAACTTTGTACTGGAGTGCCACTTGGCCTAAGGAGGTGGAACAACTATCGAAGAAGTTTCTTTATAACCCATACAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattctgcataatctggagatatcaggttcctatttattggtttgctttatgtagATTCGTCCTGATCGTCAAACCCTCTATTGGAGTGCTACATGGCCCAAGGAGGTGGAACAACTTGCTAGGAAGTTCCTTTACAACCCATGTAAA
tttgcttt CT-rich tract
tatttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atccggcttacctttctcctctcttccttgtaattgtatctgttgaattctgcataatctggagatatcaggttcctatttattggtttgctttatgtagATTCGTCCTGATCGTCAAACCCTCTATTGGAGTGCTACATGGCCCAAGGAGGTGGAACAACTTGCTAGGAAGTTCCTTTACAACCCATGTAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - tttctcc
- - - - - - - - - - ctcttcc
- - - - - - - - - - - - - - - - - - - -ctgttga
- - - - - - - - - - - - - - - - - - - - - - - - -ctgcata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtttg