Sequence
atgc intronic sequence ATGC exonic sequence...tgcacctctttctttgttgttttcattgaattagttaacttctcatttcagggaaattctaaaattatctcattaatactaggatattaccatgattcagGCATTTAATGTTTTGCGCTATGAGATTGGGCAGAGGTATAATTCTCATTACGATGCATTTGATCCTGCTGAATATGGTCCACAAAAGAGCCACAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0129g00460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os03g55380.1 (Oryza sativa), 3'ss of exon 4
-tgcacctctttctttgttgttttcattgaat-tagttaacttctcatttcagggaaattctaaaattatctcattaatactaggatattaccatgattcagGCATTTAATGTTTTGCGCTATGAGATTGGGCAGAGGTATAATTCTCATTACGATGCATTTGATCCTGCTGAATATGGTCCACAAAAGAGCCACAGG
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attaaacatttctattgctacccatatgaaatatagttttcggatcattcagattatgaaaagaaattttatt-ttaccatattcat-ttgttatgttacagCCCTTTAATATCCTGCGCTATGAGATTGGACAGAGGTATGCTTCGCATTATGACGCATTCGACCCAGCTCAGTATGGTCCACAAAAAAGTCAAAGG
upper sequence: Vv07s0129g00460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G22270.1 (Glycine max), 3'ss of exon 4
-------tgcacctctt-tctttgttgttttcattgaattagttaacttctc---atttcagggaaattctaaaattatctcattaatactaggatattaccatgattcagGCATTTAATGTTTTGCGCTATGAGATTGGGCAGAGGTATAATTCTCATTACGATGCATTTGATCCTGCTGAATATGGTCCACAAAAGAGCCACAGG
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tgttatctgcaactaaggtgcttcatgattttgttgaatttgtaaacctctctcattttcagggtgattttaaa-ttgtctga----------ggaatcaccatgtttcagGCATTTAATATCCTACGCTATGAGGTTGATCAAAGATATAATTCTCATTATGATGCGTTCAATCCTGCTGAATATGGTCCACAAAAGAGCCAAAGG
upper sequence: Vv07s0129g00460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G17810.1 (Glycine max), 3'ss of exon 4
----tgcacctctt----tctttgttgttttcattgaattagttaacttctc---atttcagggaaattctaaaattatctcattaatactaggatattaccatgattcagGCATTTAATGTTTTGCGCTATGAGATTGGGCAGAGGTATAATTCTCATTACGATGCATTTGATCCTGCTGAATATGGTCCACAAAAGAGCCACAGG
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tatctgcaacaactaaggtgctttatgattttgttgaatttgtaaacctctctcattttcagggtgattttaaa-ttgtctga----------ggaatcaccatgtttcagGCATTTAATATCCTACGCTATGAGGTCAATCAAAGATATAATTCTCATTATGATGCATTCAATCCTGCTGAATATGGCCCACAAAAGAGCCAACGG
upper sequence: Vv07s0129g00460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G05380.1 (Glycine max), 3'ss of exon 4
--------tgcacctctttctttgttgt-tttcattgaattagttaacttctcatttc-agggaaattctaaaattatctcattaatactaggatattaccatgattcagGCATTTAATGTTTTGCGCTATGAGATTGGGCAGAGGTATAATTCTCATTACGATGCATTTGATCCTGCTGAATATGGTCCACAAAAGAGCCACAGG
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taattatctgcaactacggtgccattttattttgtcgaatttgtaaatcttttatttttaaggtgattctaaagt-atctgagtaataac---------caatgtttcagGCATTTAATATTCTACGCTATGAGGTTGGACAAAAATACAATTCTCATTATGATGCATTTGATGAAGCAGAATATGGCCCACTGCAGAGCCAAAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcagggaaattctaaaattatctcattaatactaggatattaccatgattcagGCATTTAATGTTTTGCGCTATGAGATTGGGCAGAGGTATAATTCTCATTACGATGCATTTGATCCTGCTGAATATGGTCCACAAAAGAGCCACAGG
aaattctaaaattatc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcacctctttctttgttgttttcattgaattagttaacttctcatttcagggaaattctaaaattatctcattaatactaggatattaccatgattcagGCATTTAATGTTTTGCGCTATGAGATTGGGCAGAGGTATAATTCTCATTACGATGCATTTGATCCTGCTGAATATGGTCCACAAAAGAGCCACAGG
- cacctct
- - - - - - - - - - - - - - - - - - - - - - - - -agggaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaatta