Sequence
atgc intronic sequence ATGC exonic sequence...tgatatgcttgcagttctatgatctattaaatatttttgacctcaatggacttccctcagaagagaacccctatctatttaatggtgattttgtggatagAGGATCCTTTTCTTTAGAGGTCATCCTCACACTGTTTGCATTTAAGTGCATGTCTCCATCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G126435_T02 (Zea mays), 3'ss of exon 6
--------------------------------------------------------------------------------------tgatatgcttgcagttctatgatctattaaatatttttgacctcaatggacttccctcagaagagaacccctatctatttaatggtgattttgtggatagAGGATCCTTTTCTTTAGAGGTCATCCTCACACTGTTTGCATTTAAGTGCATGTCTCCATCAG
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ggaatagtggcttcgcttggcctggctaaactttgtattgccatatggttcctttaagctgcactggttggcatgactaatcttttttttccctgtgcagTACTTTGATTTGCTCAACATATTTGACCTCAATGGCCTTCCATCAGAAGAAAATCCTTACCTCTTCAATGGCGATTTTGTGGACCGAGGATCTTTCTCCG------------------------------------------------
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G12440.1 (Glycine max), 3'ss of exon 7
------------------------------------------------------------------------------------tgatatgct-tgcagttctatgatctattaaatatttttgacctcaatggacttccctcagaagagaacccctatctatttaatggtgattttgtggatagAGGATCCTTTTCTTTAGAGGTCATCCTCACACTGTTTGCATTTAAGTGCATGTCTCCATCAG
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gaaggtcctccatcattgcagggcatttgtatttttgtatttttatctttaatttttaactttgcaaattcattattatttgttttctgtcttctgcagtACTATGATCTTCTGAATATTTTTGAGCTTAATGGGCTTCCTTCAGAAGAGAATCCGTATCTATTTAATGGTGACTTTGTGGATAGGGGATCCTTTTCATT-----------------------------------------------
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G42380.1 (Glycine max), 3'ss of exon 7
-------------------------------------------------------------------------------------tgatatgct-tgcagttctatgatctattaaatatttttgacctcaatggacttccctcagaagagaacccctatctatttaatggtgattttgtggatagAGGATCCTTTTCTTTAGAGGTCATCCTCACACTGTTTGCATTTAAGTGCATGTCTCCATCAG
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cttcttttatcctgttgcatcattttgcttggcttttgaatttttttctttaatttttaaccttgcaatttcattagtatttgttttccatcttctgcagTACTATGATCTTCTGAATATTTTTGAGCTTAATGGGCTTCCTTCAGAAGAGAATCCGTATCTATTTAATGGTGACTTTGTGGATAGGGGATCTTTTTCAT------------------------------------------------
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G42810.1 (Arabidopsis thaliana), 3'ss of exon 7
------------------------------------------------------------------------------------tgatatgctt--gcagttctatgatctattaaatatttttgacctcaatggacttccctcagaagagaacccctatctatttaatggtgattttgtggatagAGGATCCTTTTCTTTAGAGGTCATCCTCACACTGTTTGCATTTAAGTGCATGTCTCCATCAG
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atcttgaatttattggctaaccttctactccctcttgcactattaagggctgtattgtgttgtattgggtgtatgtttgacacattgtttgcttttgcagTTCTACGATCTTCTCAATATCTTTGAGCTTAATGGCCTCCCTTCGGAGGAGAACCCATACCTATTTAATGGCGACTTTGTGGACAGAGGCTCATTCTCCG------------------------------------------------ atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggacttccctcagaagagaacccctatctatttaatggtgattttgtggatagAGGATCCTTTTCTTTAGAGGTCATCCTCACACTGTTTGCATTTAAGTGCATGTCTCCATCAG
atttaat putative branch site (score: 4)
tatctatttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgatatgcttgcagttctatgatctattaaatatttttgacctcaatggacttccctcagaagagaacccctatctatttaatggtgattttgtggatagAGGATCCTTTTCTTTAGAGGTCATCCTCACACTGTTTGCATTTAAGTGCATGTCTCCATCAG
- - - gcttgca
- - - - - - - - - - - - - - - - - - - -acctcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccctat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtgat