Sequence
atgc intronic sequence ATGC exonic sequencegtagattacagcattttcttcatttgaattgtgaatgactaaggtgcccttgactggatcaagttaatttcttatgttcctcaacttaatgaaaactaagagaattgtgactttgttactttcagATTGCTTTGGAAAGGTAATTGGTTCGTACAAGAGAAGAGCTGTAAGATTCTGGCTCTGATAGTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0039g01610.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G25740.1 (Glycine max), 3'ss of exon 5
gtagattacagcattttcttcatttgaattgtgaatgactaaggtgcccttgactggatcaagttaatttcttatgttcctcaacttaatgaaaactaagagaattgtgactttgtta-----ctttcagATTGCTTTGGAAAGGTAATTGGTTCGTACAAGAGAAGAGCTGTAAGATTCTGGCTCTGATAGTGAG
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---------------------------ctagataatgac--atatgtttgttatgcattttgactattttctt-tgtacttcaaagttatgatatacaaaaaaaaactaacaatattttccatctttcagATTGCTCTGGAAAGGAAATTGGTTCATACAAGAGAAAAGTTGTAAGATCCTCGCTTTAATTGTTAG
upper sequence: Vv16s0039g01610.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G06710.1 (Glycine max), 3'ss of exon 5
gtagattacagcattttcttcatttgaattgtgaatgactaaggtgcccttgactggatcaagttaatttcttatgtt-cctcaacttaatgaaaactaagagaattgtgactttgtta-----ctttcagATTGCTTTGGAAAGGTAATTGGTTCGTACAAGAGAAGAGCTGTAAGATTCTGGCTCTGATAGTGAG
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-----------------------------aatggaccaccatgaaccacttagttaact--agtccaccctagatactgtctcaaagttatgatatacaaaaaataactaacaatattatccatctttcagATTGCTCTGGAAAGGAAATTGGTTCATACAAGAGAAAAGTTGTAAGATCCTTGCTTTAGTTGTTAG
upper sequence: Vv16s0039g01610.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G42050.1 (Arabidopsis thaliana), 3'ss of exon 5
gtagattacagcattttcttcatttgaattgtgaatgacta-aggtgcccttgactggatcaagttaatttcttatgttcctcaacttaatgaaaactaagagaattgtgactttgttactttcagATTGCTTTGGAAAGGTAATTGGTTCGTACAAGAGAAGAGCTGTAAGATTCTGGCTCTGATAGTGAG
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------------------ttgatggaaactgctttcagctacatttgtgcttgattttggctgcttaattgctta-gcttcaaaagatcatgccatctaaaaga--tgtgtcct-----ctttcagGTTGCTTTGGAAGGGAAATTGGTTCATTCAAGAAAAAAGCTGTAAGATCCTTGCCTGGATAATAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttatgttcctcaacttaatgaaaactaagagaattgtgactttgttactttcagATTGCTTTGGAAAGGTAATTGGTTCGTACAAGAGAAGAGCTGTAAGATTCTGGCTCTGATAGTGAG
acttaat putative branch site (score: 4)
ttactttc putative PPT
ttaatgaaaactaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagattacagcattttcttcatttgaattgtgaatgactaaggtgcccttgactggatcaagttaatttcttatgttcctcaacttaatgaaaactaagagaattgtgactttgttactttcagATTGCTTTGGAAAGGTAATTGGTTCGTACAAGAGAAGAGCTGTAAGATTCTGGCTCTGATAGTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT