Sequence
atgc intronic sequence ATGC exonic sequence...aaatattatgccagctcccttactggatatcattttattggcactgaggttttctcctctattatcctgatggatgccctttgttatattcttgctccagAAAATTCCTCTGGTCATGGATGGACGGAGACCTGGTGATGCTGAGATTGTTTATGCATCAACAACCAAAGCAGAAAAGGAGTTGAACTGGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA01G43540.2 (Glycine max), 3'ss of exon 6
aaatattatgccagctcccttactggatatcatttt-attggcactgaggttttctcctctattatcctgatggatgccctttgttatattcttgctccagAAAATTCCTCTGGTCATGGATGGACGGAGACCTGGTGATGCTGAGATTGTTTATGCATCAACAACCAAAGCAGAAAAGGAGTTGAACTGGAA
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tcctaaaacgtagaacatcttgaaccgagtcattttcatttgtatttagctattatgcagtgcatgtataattaattctcctgactattcatgtgttc-agAAAATTCCACTTGTGATGGCTGGCCGTAGACCTGGTGATGCTGAAATTGTTTATGCATCAACAAAGAAAGCGGAAAGAGAGCTTAAATGGAA
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G01940.2 (Glycine max), 3'ss of exon 4
aaatattatgccagctcccttactggata--tcatttt-attggcactgaggttttctcctctattatcctgatggatgccctttgttatattcttgctccagAAAATTCCTCTGGTCATGGATGGACGGAGACCTGGTGATGCTGAGATTGTTTATGCATCAACAACCAAAGCAGAAAAGGAGTTGAACTGGAA
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--aaaatctagaagatcttgaaccaactaagtcatttttatttggatttagctattcttcagtgcatgtataattaattctcatgattattcatttg-tgtagAAAATTCCACTTGTGATGGCTGGCCGTAGACCTGGTGATGCTGAAATTGTTTATGCATCAACAAAGAAAGCGGAAAGAGAGCTTAAATGGAA
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G01940.3 (Glycine max), 3'ss of exon 7
aaatattatgccagctcccttactggata--tcatttt-attggcactgaggttttctcctctattatcctgatggatgccctttgttatattcttgctccagAAAATTCCTCTGGTCATGGATGGACGGAGACCTGGTGATGCTGAGATTGTTTATGCATCAACAACCAAAGCAGAAAAGGAGTTGAACTGGAA--------
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--aaaatctagaagatcttgaaccaactaagtcatttttatttggatttagctattcttcagtgcatgtataattaattctcatgattattcatttg-tgtagAAAATTCCACTTGTGATGGCTGGCCGTAGACCTGGTGATGCTGAAATTGTTTATGCATCAACAAAGAAAGCGGAAAGAGAGCTTAAATGGAAGTGAGTGT
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G02690.1 (Glycine max), 3'ss of exon 7
----aaatattatgccagctcccttactggatatcattttattggcactgaggttttctcctctattatcctgatggatgccctttgttatattcttgctccagAAAATTCCTCTGGTCATGGATGGACGGAGACCTGGTGATGCTGAGATTGTTTATGCATCAACAACCAAAGCAGAAAAGGAGTTGAACTGGAA
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ttgtttaaataaataaacctaaaacattttgaaccaactcgtttatgctattcttcggtacctgactaatttaatctttgtac---aatttattaatgctc-agAAAATTCCACTTGCAATGGCGGGTCGGAGACCTGGTGATGCTGAAATTGTTTATGCATCAACAGAAAAAGCGGAAAGAGAACTTAAATGGAA
upper sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G36850.1 (Glycine max), 3'ss of exon 7
--aaatattatgccagctcccttactggatatcattttattggcactgaggttttctcctctattatcctgatggatgccctttgttatattcttgctccagAAAATTCCTCTGGTCATGGATGGACGGAGACCTGGTGATGCTGAGATTGTTTATGCATCAACAACCAAAGCAGAAAAGGAGTTGAACTGGAA
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aagtgttttaaatagataaacctaaaacatcttgaaccaacttgtttatgatattcttcagtacctgactaatata-atcttacaatttattaatgttc-agAAAATTCCACTTGCAATGGCTGGTCGGAGACCTGGAGATGCTGAAATTGTTTATGCATCAACAGAGAAAGCGGAAAGAGAACTTAATTGGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaggttttctcctctattatcctgatggatgccctttgttatattcttgctccagAAAATTCCTCTGGTCATGGATGGACGGAGACCTGGTGATGCTGAGATTGTTTATGCATCAACAACCAAAGCAGAAAAGGAGTTGAACTGGAA
tcctgat putative branch site (score: 3)
ttcttgctcc putative PPT
tttgttatattctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatattatgccagctcccttactggatatcattttattggcactgaggttttctcctctattatcctgatggatgccctttgttatattcttgctccagAAAATTCCTCTGGTCATGGATGGACGGAGACCTGGTGATGCTGAGATTGTTTATGCATCAACAACCAAAGCAGAAAAGGAGTTGAACTGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - tatgcca
- - - - - - - ctccctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgccctt