Sequence
atgc intronic sequence ATGC exonic sequence...gggcaaaattgtggtaaattggaaaaattatacaaaaaaccttaggattagtgttctgattctctttaaaaatagtaatgttgcttcttatttgtcacagGCCCGAATATTGAAGCATGCAGGTGATTTGGAAGCTGCAGCAGCCTTGGCAGATGAGGCTAGGTGTATGGATCTTGCAGATCGCTACATAAATAGCGAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA15G01580.1 (Glycine max), 3'ss of exon 14
-gggcaaaattgtggtaaattggaa-----aaattatacaaaaaaccttaggattagtgttctgattctctttaaaaatagtaatgttgcttcttatt-tgtcacagGCCCGAATATTGAAGCATGCAGGTGATTTGGAAGCTGCAGCAGCCTTGGCAGATGAGGCTAGGTGTATGGATCTTGCAGATCGCTACATAAATAGCGAAT
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ttaataaagttgggattagtggtgacttgcaacttgcattaacagtc-----aatagcatgtggaaaagcttgttgaatgat--ttttgcatgttttcgtataacagAGTCGGATACTGAAGCATGCTGGTGATTTGGTTGCTGCTGCTGCATTTGCAGATGAGGCTAGGTGTATGGATCTTGCCGATCGTTATGTTAATAGTGAAT
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA08G22180.1 (Glycine max), 3'ss of exon 14
---------------------------------------------------------------------------gggcaaaattgtggt--aaattggaaaaattatacaaaaaaccttaggattagtgttctg------attctctttaaaaatagtaat--gttgcttcttatttgt----cacagGCCCGAATATTGAAGCATGCAGGTGATTTGGAAGCTGCAGCAGCCTTGGCAGATGAGGCTAGGTGTATGGATCTTGCAGATCGCTACATAAATAGCGAAT
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gtttgcttagagttataaacacttctcttcatttctttctggtcctttttttttggaaaattaaagttagataattaagtaacttgtagtccaagttagactatgtgtgaaactgactttggaattgccgtgctatcctcaacagtctatagcaaaatttatagattgttgcttgtctttgtaaaacagAGTCGGATACTGAAGCATGCTGGTGATTTGGTTGCTGCTGCTGCATTTGCAGATGAAGCTAGGTGTATGGATCTTGCCGATCGCTATGTTAATAGTGAAT
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA07G03850.1 (Glycine max), 3'ss of exon 14
gggcaaaattgtggtaaattggaaaaattatacaaaaaaccttaggattagtgttctgattctctttaaaaatagtaatgttg----cttcttatttgtcacagGCCCGAATATTGAAGCATGCAGGTGATTTGGAAGCTGCAGCAGCCTTGGCAGATGAGGCTAGGTGTATGGATCTTGCAGATCGCTACATAAATAGCGAAT
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--gccaagttagactatgtgtgaaacagactttggag--ttgcggtgctatcgtcaacagtctatagcaaaatttaaagattggtgcctttctttgtaaaacagAGTCGGATACTGAAGCATGCTGGTGATTTGGTTGCTGCTGCTGCATTTGCAGATGAAGCTAGGTGTATGGATCTTGCCGATCGTTATGTTAATAGTGAAT
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA13G43760.1 (Glycine max), 3'ss of exon 14
gggcaaaatt-gtggtaaattggaaaaattatacaaaaaacc--ttaggattagtgttctgattctctttaaaaatagtaatgttgcttcttatt-tgtcacagGCCCGAATATTGAAGCATGCAGGTGATTTGGAAGCTGCAGCAGCCTTGGCAGATGAGGCTAGGTGTATGGATCTTGCAGATCGCTACATAAATAGCGAAT
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agttgggattagtggtgact--ggtaacttgtattaacagtcaatactcaatagcatgtggaaaaacttgttgaatgat--tgttgcatgttttcgtataacagAGTCGGATACTGAAGCATGCTGGTGATTTGGTTGCTGCTGCTGCATTTGCTGATGAAGCTAGGTGTATGGATCTTGCTGATCGTTATGTTAATAGTGAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattagtgttctgattctctttaaaaatagtaatgttgcttcttatttgtcacagGCCCGAATATTGAAGCATGCAGGTGATTTGGAAGCTGCAGCAGCCTTGGCAGATGAGGCTAGGTGTATGGATCTTGCAGATCGCTACATAAATAGCGAAT
ttctgat putative branch site (score: 3)
cttcttattt putative PPT
attctctttaaaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gggcaaaattgtggtaaattggaaaaattatacaaaaaaccttaggattagtgttctgattctctttaaaaatagtaatgttgcttcttatttgtcacagGCCCGAATATTGAAGCATGCAGGTGATTTGGAAGCTGCAGCAGCCTTGGCAGATGAGGCTAGGTGTATGGATCTTGCAGATCGCTACATAAATAGCGAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
-ggcaaaa
- - - - ttgtggt
- - - - - - - - - - ggaaaaa
- - - - - - - - - - - - - - - - caaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgct