Sequence
atgc intronic sequence ATGC exonic sequence...ttgctgtcttgtagcttaagtatttgatggaattacatctgtttgtattctctgtggttagtactttatattttctcggcgcactttattgtgtatgcagGATCTGTTTACACTGGTGTGGAGTTCTCCAAAAGGTTGTGTGGTGTCTCAGTGATCAGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G034143_T03 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os02g17320.3 (Oryza sativa), 3'ss of exon 10
--------ttgctgtcttgtag-cttaagtatttgatggaattacatctgtttgtattctctgtggttagtactttatattttctcggcgcactttattgtgtatgcagGATCTGTTTACACTGGTGTGGAGTTCTCCAAAAGGTTGTGTGGTGTCTCAGTGATCAGGAG
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atttacctccatagttctgttctcttgagaatc--atggagttatatgcatttgttttctcct--gcaattaatttatatcttt-----gcccttatttatgcgtgcagGATCGGTTTACACTGGGGTAGAGTTCTCCAAAAGATTGTGTGGTATCTCAGTGATTAGAAG
upper sequence: GRMZM2G034143_T03 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os11g16370.1 (Oryza sativa), 3'ss of exon 10
--------ttgctgtcttgtagcttaagtatttgatggaattacatctgtttgtattctctgtggttagtactttatattttctcggcgcactttattgtgtatgcagGATCTGTTTACACTGGTGTGGAGTTCTCCAAAAGGTTGTGTGGTGTCTCAGTGATCAGGAG
||| ||| | ||||| |||| | |||| ||||| | |||| ||||||| || | || || ||| |||||| |||||||||||||| || |||||||| ||||| ||||| ||| |||||||||| || ||
atttacctccattgttctgttctcttgtagaagcatggagttacctgcaattgttttctcct--gcaagtaatttatatctttgc------tttatttatgtgtgcagGTTCTGTTTACACTGGGGTAGAGTTCTCTAAAAGATTGTGCGGTATCTCAGTGATTAGAAG
upper sequence: GRMZM2G034143_T03 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA08G45270.1 (Glycine max), 3'ss of exon 10
ttgctgtcttgtagcttaagtatttgatggaattacatctgtttgtattctctgtggttagtactttatattttctcggcgcact-ttattgt-gtatgcagGATCTGTTTACACTGGTGTGGAGTTCTCCAAAAGGTTGTGTGGTGTCTCAGTGATCAGGAG
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atgttaccttgtggttgtcatcttct-tgtatttactaaaaaaagt-ttgtttatgtttgaaccttcttatgataactattgattcttgtcctcaaatgcagGTTCTGTATACACTGGTGTTGATTTTTGTAAAAGGTTGTGTGGTGTCTCTGTTATCAGAAG
upper sequence: GRMZM2G034143_T03 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA02G47270.1 (Glycine max), 3'ss of exon 10
ttgctgtcttgtagcttaagtatttgatggaattacatctgtttgtattctctgtggttagtactttatattttc---tcggc--gcactttattgtgtatgcagGATCTGTTTACACTGGTGTGGAGTTCTCCAAAAGGTTGTGTGGTGTCTCAGTGATCAGGAG
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---tgatattctccttcaattattt-acaaaaatatacttagtt-tgtttcacgtcttaacctttttatggttacagctaagctaatacttgtccttcaatgcagCATCGGTATACAGTGGTGTGGATTTCTGCAAGAGGTTGTGTGGTGTCTCTATCATCCGGAG
upper sequence: GRMZM2G034143_T03 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA18G08180.1 (Glycine max), 3'ss of exon 10
------ttgctgtc-ttgtagcttaagtatttgatggaattacatctgtttgtattctctgtggttagtactttatattttctcggcgcact-ttattgt-gtatgcagGATCTGTTTACACTGGTGTGGAGTTCTCCAAAAGGTTGTGTGGTGTCTCAGTGATCAGGAG
| | |||| || | | | ||||| | || | ||||||| | || ||| ||| | | | ||| | | || | | ||||||| ||||| ||||||||||| || || | |||||||||||||||||||| || ||||| ||
tccttgtggttgtcattcttgttcttctatttactaaaaaaa-gtctgtttatttt--------ttaac-cttcttctggtaacggttgattcttgtcctcaaatgcaggTTCTGTATACACTGGTGTTGATTTTTGTAAAAGGTTGTGTGGTGTCTCTGTTATCAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattctctgtggttagtactttatattttctcggcgcactttattgtgtatgcagGATCTGTTTACACTGGTGTGGAGTTCTCCAAAAGGTTGTGTGGTGTCTCAGTGATCAGGAG
ttagtactttatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgctgtcttgtagcttaagtatttgatggaattacatctgtttgtattctctgtggttagtactttatattttctcggcgcactttattgtgtatgcagGATCTGTTTACACTGGTGTGGAGTTCTCCAAAAGGTTGTGTGGTGTCTCAGTGATCAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG