Sequence
atgc intronic sequence ATGC exonic sequencegtaagtttttaaaagaaatggttgatcttagggatgacttatgccatccacagcagaccaaagacaagctaattaattatatagcttctgatatgattttttttcacccattcttgtagttgttacttgttattctgtaaaccacgtacattatcctcaatatcctacttattttctttattaaatttgatagGCTCAAGAAAGTCACTGTTCAATGTCTTTCAAGATGGAATCTGCCATCCTAAGATGGCTTTAGTAATTGATGATCGTTTGAAAGTGTGGGATGAAAAAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G120373_T01 (Zea mays), 3'ss of exon 3
gtaagtttttaaaagaaatggttgatcttagggatgacttatgccatccac-agcagaccaaagacaagctaattaattatatagcttctgatatgat-tttttttcacccattcttgtagt-tgttacttgttattctgtaaaccacgtacattatcctcaatatcctacttattttctttattaaatttgatagGCTCAAGAAAGTCACTGTTCAATGTCTTTCAAGATGGAATCTGCCATCCTAAGATGGCTTTAGTAATTGATGATCGTTTGAAAGTGTGGGATGAAAAAGA
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-----------------------------gtatgtaattcatcttgtttttgaacaagtacaaaaagagc--attagcctaatgtggcctaa-atgttgtcatactcaaaagttgacaaactgtgaaaaatacaattcaaatttttagtttcattctactgaaattaatgccaaatttcct------attt-atagGTTTAAAAAAGTCCTTGCTAAATGTCTTCCATGATGGTTCTTGCCATCCTGGTATGGCATTAGTAATTGATGATCGCCTGAAAGTTTGGGATGAGAAGGA
upper sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G31430.1 (Glycine max), 3'ss of exon 3
gtaagtttttaaaagaaatggttgatcttagggatgacttatgccatccacagcagaccaaagacaagctaattaattatatagcttctgatatgattttttttcacccattcttgtagttgttacttgttattctgtaaaccacgtacattatcctcaatatcctacttattttctttattaaatttgatagGCTCAAGAAAGTCACTGTTCAATGTCTTTCAAGATGGAATCTGCCATCCTAAGATGGCTTTAGTAATTGATGATCGTTTGAAAGTGTGGGATGAAAAAGA
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----------------------------------------------------------------------------------atgctttattattgtaccatacaat--atgcctgtgctt-ttgctggttctgtt-taatttacttgtcatacttataatatggta-----tttcaataatacaat--acagGTTTGAAGAAGTCATTGTTCAATGTCTTCCAAGATGGTTTATGCCATCCAAAGATGGCATTGGTAATTGATGATCGCTTGAAAGTGTGGGATGAGAAGGA
upper sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G25010.1 (Glycine max), 3'ss of exon 3
gtaagtttttaaaagaaatggttgatcttagggatgacttatgccatccacagcagaccaaagacaagctaattaattatatagcttctgatatgattttttttcacccattcttgtagttgt-tacttgttatt-ctgtaaaccacgtacattatcctcaatatcctacttattttctttattaaatttgatagGCTCAAGAAAGTCACTGTTCAATGTCTTTCAAGATGGAATCTGCCATCCTAAGATGGCTTTAGTAATTGATGATCGTTTGAAAGTGTGGGATGAAAAAGA
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---------------------------------------------------------------------------------------------ctttatttttgtaccataccatatgcctgtgtttttgctgctgctgtttagtttgcttgtcatacttataatatgatggtgtttcaataatataat--acagGTTTGAAGAAGTCATTGTTCAATGTCTTCCAAGATGGTTCATGTGATCCAAAGATGGCATTGGTAATTGATGATCGCTTGAAAGTGTGGGATGAGAGGGA
upper sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G31510.1 (Glycine max), 3'ss of exon 3
gtaagtttttaaaagaaatggttgatcttagggatgacttatgccatccacagcagaccaaagacaagctaattaattatatagcttctgatatgattttttttcacccattcttgtagttgttacttgttattctgtaaaccacgtacattatcctcaatatcctacttattttctttattaaatt-tgatagGCTCAAGAAAGTCACTGTTCAATGTCTTTCAAGATGGAATCTGCCATCCTAAGATGGCTTTAGTAATTGATGATCGTTTGAAAGTGTGGGATGAAAAAGA
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-----------------------------------------------------------------------------------------aata-gctcgaatttta---aattttcaaattcatagcagtttttctgctgcaactgttcatt-tattttttgtgcttcttgtgtgtttcaatatattataatagGTTTAAAGAAATCATTGTTTAATGTATTCCAAAATGGCTTATGCCATCTGAAGATGGCATTGGTAATTGATGATCGCTTGAAAGTGTGGGATGAGAAAGA
upper sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G07800.1 (Glycine max), 3'ss of exon 3
-------gtaagtttttaaaa----gaaatggttgatcttagggatgacttatgccatccacagcagaccaaagacaagctaattaattatatagcttctgatatgattttttttcacccattcttgtagttgttacttgttattctgtaaaccacgtacattatcctcaatatcctacttattttctttattaaatttgatagGCTCAAGAAAGTCACTGTTCAATGTCTTTCAAGATGGAATCTGCCATCCTAAGATGGCTTTAGTAATTGATGATCGTTTGAAAGTGTGGGATGAAAAAGA
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gtaagtggcatttttttaaaattctattatccttgttttcaaatgagaagctttacatgtgtaattgagtagata-aagggagcaaataaaaaggatgacaata-gcttgtatttta---aattttaaaattcataccagtttttctgctgcaactgttcatttatttt----ttgtgtttatgtgtttcaatatat--aatagGTTTAAAGAAATCGTTGTTTAATGTATTCCAAAATGGCTTATGCCATCTGAAGATGGCATTGGTAATTGATGATCGCCTGAAAGTGTGGGATGAGAAAGA
upper sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G21670.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaagtttttaaaagaaatggttgatcttagggatgacttatgccatccacagcagaccaaagacaagctaattaattatatagcttctgatatgattttttttcacccattcttgtagttgttacttgttattctgtaaac-cacgtacattatcctcaatatcctacttatt--ttctttattaaatttgatagGCTCAAGAAAGTCACTGTTCAATGTCTTTCAAGATGGAATCTGCCATCCTAAGATGGCTTTAGTAATTGATGATCGTTTGAAAGTGTGGGATGAAAAAGA
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-------------------------------------------------------------------------------------------------------------------gta--tactttttggtatcttatacctgcttatatttcatcatggtaaaacttcttacaagcttgtaattaaccaccacagGTTTTAAAAAGTCACTGTTCAATGTGTTTCTCGATGGAACCTGCCATCCAAAGATGGCATTGGTAATTGATGATCGATTGAAAGTTTGGGATGAGAAGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaccacgtacattatcctcaatatcctacttattttctttattaaatttgatagGCTCAAGAAAGTCACTGTTCAATGTCTTTCAAGATGGAATCTGCCATCCTAAGATGGCTTTAGTAATTGATGATCGTTTGAAAGTGTGGGATGAAAAAGA
aatatcctacttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtttttaaaagaaatggttgatcttagggatgacttatgccatccacagcagaccaaagacaagctaattaattatatagcttctgatatgattttttttcacccattcttgtagttgttacttgttattctgtaaaccacgtacattatcctcaatatcctacttattttctttattaaatttgatagGCTCAAGAAAGTCACTGTTCAATGTCTTTCAAGATGGAATCTGCCATCCTAAGATGGCTTTAGTAATTGATGATCGTTTGAAAGTGTGGGATGAAAAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG