Sequence
atgc intronic sequence ATGC exonic sequence...acatatctaatattgatgcttaagatcatcatatttgcctttttaacagttcatttacttatctttgcttttgtttcttgcttgggctttgtgtttctagTCGAGAGACAGGTGCACTAAATCGAATAATTGATCGGGGTAGCCGTGCAATTAACTTTATTCTCTCATCAATGGTATTCAATATTGTACCTACCATCTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g08350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G38800.1 (Glycine max), 3'ss of exon 4
acatatctaatattgatgcttaag--atcatcatatttgcctttttaacagttcatttact-tatctttgcttttgtttcttgcttgggctttgtgtttctagTCGAGAGACAGGTGCACTAAATCGAATAATTGATCGGGGTAGCCGTGCAATTAACTTTATTCTCTCATCAATGGTATTCAATATTGTACCTACCATCTTA
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--tcacaaaatattcat-ctcaattcatgcttctcttctgcattttgagtgtttgtctattgtttactagtgtacccctctcacctagttattgtttttccagTCGAGAAACTGGTGCATTAAGTAGAATAATTGATCGTGGTAGTCGTGGAATAAATTTCATTCTCTCCTCTATGGTGTTCAATGTAGTACCCACCATATTA
upper sequence: Vv06s0004g08350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G40490.1 (Glycine max), 3'ss of exon 4
acatatctaatattgatgcttaagatcatcatatttgcctttttaacagttcatttact-tatctttgcttttgtttcttgcttgggctttgtgttt-ctagTCGAGAGACAGGTGCACTAAATCGAATAATTGATCGGGGTAGCCGTGCAATTAACTTTATTCTCTCATCAATGGTATTCAATATTGTACCTACCATCTTA
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--aagataatcatctctatttatgcttctctttttcttcattttgagtgtttgtctattgtttaattgtttacccctatcacctagttattgttttttccagCCGAGAAACTGGTGCATTAAGTAGAATAATTGATCGTGGTAGTCGTGGAATAAATTTCATTCTCTCCTCTATGGTGTTCAATGTAGTACCCACCATATTA
upper sequence: Vv06s0004g08350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G58270.1 (Arabidopsis thaliana), 3'ss of exon 3
acatatctaatattgatgcttaagatcatcatatttgcctttttaacagttcatttacttatctttgcttttgtttcttgcttgggctttgtgtttctagTCGAGAGACAGGTGCACTAAATCGAATAATTGATCGGGGTAGCCGTGCAATTAACTTTATTCTCTCATCAATGGTATTCAATATTGTACCTACCATCTTA
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--gtatctatctctcctctcttactcttgtgagtagtctcgctcattccatcttagattcatctcatcataacttccttacttaattgct-tatgtccagTCGAGAAACAGGCGGCTTGAACAGGATTATTGATCGTGGTAGCCGTGCAATAAATTTTATCCTCTCAGCTATGGTTTTCAATGTTGTTCCTACCATATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acagttcatttacttatctttgcttttgtttcttgcttgggctttgtgtttctagTCGAGAGACAGGTGCACTAAATCGAATAATTGATCGGGGTAGCCGTGCAATTAACTTTATTCTCTCATCAATGGTATTCAATATTGTACCTACCATCTTA
ttttaac putative branch site (score: 2)
tgtttct putative PPT
atttacttatcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acatatctaatattgatgcttaagatcatcatatttgcctttttaacagttcatttacttatctttgcttttgtttcttgcttgggctttgtgtttctagTCGAGAGACAGGTGCACTAAATCGAATAATTGATCGGGGTAGCCGTGCAATTAACTTTATTCTCTCATCAATGGTATTCAATATTGTACCTACCATCTTA
- - - - - - -tgatgct
- - - - - - - - - - - - - - - - - -tgccttt