Sequence
atgc intronic sequence ATGC exonic sequence...ttcacaatttggggattatttcatcccttttaaccaaacatttaaatttttattcatgtccatgaaacctttggtagtaactttattttcctatttatagGAGATAAGGCAATTATGCTCATATCTATTGGATTTGAAAAAAGCTTCTGCGGAGGAAATGCGTAGAAGTGTCTATGCTAATTATGCAGCCTTCATTCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0018g01920.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G00570.2 (Glycine max), 3'ss of exon 3
ttcacaatttggggattatttcatcccttttaaccaaacatt-taaatttttattcatg--tcc----atgaaacctttggt--agtaactttattttcctatttatagGAGATAAGGCAATTATGCTCATATCTATTGGATTTGAAAAAAGCTTCTGCGGAGGAAATGCGTAGAAGTGTCTATGCTAATTATGCAGCCTTCATTCG
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-----tacttgtggagaaatttatccaaa--aacgggactttgtcattttgtagtggtgaatcctgttattggatacgtgattaagcaatgttactttgttcttca--gGAAATTAAGCAATTGTGCACATATTTGGTGGACTTGAAGAAAGCGTCTGCTGAGGAGATGCGTCGAAGTGTCTATGCTAACTATGCAGCTTTCATACG
upper sequence: Vv09s0018g01920.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G23840.1 (Glycine max), 3'ss of exon 2
ttcacaatttgggga----ttatttcatcccttttaaccaaac---atttaaatttttattcatgtccatgaaacctttggtagtaactttattttcctatttatagGAGATAAGGCAATTATGCTCATATCTATTGGATTTGAAAAAAGCTTCTGCGGAGGAAATGCGTAGAAGTGTCTATGCTAATTATGCAGCCTTCATTCG
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tttgtagtggtgaaacctgttattggatacgtctagttcacatcaggtagagaaaaattttcgtgttcttcaca---ttg--agcaatgctactttattcttca--gGAAATTAAGCAATTGTGCACATATTTGGTGGACTTGAAGAAAGCGTCTGCTGAGGAGATGCGTCGAAGTGTCTATGCTAACTATGCAGCTTTCATACG
upper sequence: Vv09s0018g01920.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G49830.2 (Arabidopsis thaliana), 3'ss of exon 3
--------------------------------------------ttcacaatttggggattatttcatcccttttaaccaaacatttaaatt--------------tttattcatgtccatgaaacctttggtagtaactt--tattttcctatttatagGAGATAAGGCAATTATGCTCATATCTATTGGATTTGAAAAAAGCTTCTGCGGAGGAAATGCGTAGAAGTGTCTATGCTAATTATGCAGCCTTCATTCG
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gtgagagagctgagggaaaagttagtttaggccttctagagtttactacaaaaagagtagtgtttgatttggttaacatagattgttggattacttggctggactctttgttttttctcagttattttgggatgatgacatatttctgttcggttcacagGATATAAAGCAGTTATGCTCGTATCTATTGGATTTGAAGAGAGCATCTGCTGAAGAAATGCGGCGAAGTGTTTATGCTAATTATCCAGCCTTTATACG
upper sequence: Vv09s0018g01920.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G49830.3 (Arabidopsis thaliana), 3'ss of exon 2
ttcacaatttggggattatttcatcccttttaaccaaacatttaaatt-tttattcatgtccatgaaacctttggtagtaactttatttt--cctatttatagGAGATAAGGCAATTATGCTCATATCTATTGGATTTGAAAAAAGCTTCTGCGGAGGAAATGCGTAGAAGTGTCTATGCTAATTATGCAGCCTTCATTCG
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tgtttgatttgg---ttaacatagattgttggattacttggctggactctttgttttttctcagttattttgggatgatgacatatttctgttcggttcacagGATATAAAGCAGTTATGCTCGTATCTATTGGATTTGAAGAGAGCATCTGCTGAAGAAATGCGGCGAAGTGTTTATGCTAATTATCCAGCCTTTATACG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttttattcatgtccatgaaacctttggtagtaactttattttcctatttatagGAGATAAGGCAATTATGCTCATATCTATTGGATTTGAAAAAAGCTTCTGCGGAGGAAATGCGTAGAAGTGTCTATGCTAATTATGCAGCCTTCATTCG
tagtaac putative branch site (score: 1)
ctttattttcctattt CT-rich tract
taactttattttccta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcacaatttggggattatttcatcccttttaaccaaacatttaaatttttattcatgtccatgaaacctttggtagtaactttattttcctatttatagGAGATAAGGCAATTATGCTCATATCTATTGGATTTGAAAAAAGCTTCTGCGGAGGAAATGCGTAGAAGTGTCTATGCTAATTATGCAGCCTTCATTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - tcatccc
- - - - - - - - - - - - - - - - -ccaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgaaa