Sequence
atgc intronic sequence ATGC exonic sequence...tgtaaagctattcctctgattaaagcatgggatttaaattttcaatctcaaaaaaaagatcagtaactctctccctctctcttctcattctcttgtgcagTTTCCTTGGAAGGAGGTCTCCATTTTACCAGTTCAGTGGCATGCTTTATGTGTCGGTTTGTTTGCATCAATAATAGCACCTTTTGGAGGATTTTTTGCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0598g00010.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os01g55360.2 (Oryza sativa), 3'ss of exon 8
-tgtaaa-gctattcctctgattaaagcatgggatttaaattttcaatctcaaaaaaaagatcagtaactctctccctctctcttctcattctcttgtgcagTTTCCTTGGAAGGAGGTCTCCATTTTACCAGTTCAGTGGCATGCTTTATGTGTCGGTTTGTTTGCATCAATAATAGCACCTTTTGGAGGATTTTTTGCAA
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ctgtttttgtttttcgtttgaattttgttttttatcatgttttccaagca-atggatgtttttggctaaagttaataagttattacatgtattgttg-acagTTCCCTTGGAAGGAAGTTGTTCTTTTGCCTGTGCAGTGGCATGCTTTAGCACTAGGTTTGTTTGCATCAATAATAGCACCTTTTGGAGGTTTCTTTGCAA
upper sequence: Vv00s0598g00010.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os10g17990.1 (Oryza sativa), 3'ss of exon 8
-tgtaaagctattcctctgattaaagcatgggatttaaattttcaatctcaaaaaaaagatcagtaactctctccctctctcttctcat----tctcttgtgcagTTTCCTTGGAAGGAGGTCTCCATTTTACCAGTTCAGTGGCATGCTTTATGTGTCGGTTTGTTTGCATCAATAATAGCACCTTTTGGAGGATTTTTTGCAA
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gtaagaaagcattttgatgtttcttataagtgaaccggagttctcattccatgtcttctagtccttgtgccatccagcctttttgtcatcctttctattttgcagATCCCTTGGCGAGAAGTGGCAATTATGCCTATTCAGTGGCATGCCTTAGCTCTTGGCTTGTTTGCTTCAATAATAGCACCATTTGGAGGGTTTTTCGCTA
upper sequence: Vv00s0598g00010.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G452529_T02 (Zea mays), 3'ss of exon 8
tgtaaagctattcctctgattaaagcatgggatttaaattttcaatctcaaaaaaa-agatcagtaactctct-ccctctctcttctcattctcttgtg-cagTTTCCTTGGAAGGAGGTCTCCATTTTACCAGTTCAGTGGCATGCTTTATGTGTCGGTTTGTTTGCATCAATAATAGCACCTTTTGGAGGATTTTTTGCAA
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--tatatttaatgtaccacatcat-cattggttttgcattatctttctagagtttctagatgtttgattttgtactctgtttgaatacatcgtttcttaacagTTCCCATGGAAAGAACTAGCTATTATGCCTGTGCAGTGGCATGCTTTAGCCCTAGGTTTATTTGCATCAATAATAGCACCATTTGGAGGATTTTTTGCGA
upper sequence: Vv00s0598g00010.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM5G825110_T01 (Zea mays), 3'ss of exon 8
-tgtaaagctattcctctgattaaagcatgggatttaaattttcaatctcaaaaaaa-agatcagtaactctctccctctctcttctcattctcttgtgcagTTTCCTTGGAAGGAGGTCTCCATTTTACCAGTTCAGTGGCATGCTTTATGTGTCGGTTTGTTTGCATCAATAATAGCACCTTTTGGAGGATTTTTTGCAA
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atgtttgattgtgtactctatcat--cattggttttgcgttatctctttagagtttctagatgtttgatttgtactctgtttgattacgtgtctcttaacagTTCCCATGGAAAGATCTAGCCATTATGCCTGTGCAGTGGCATGCTTTAGCCCTAGGTTTATTTGCGTCAATAATAGCACCATTCGGAGGATTTTTTGCGA
upper sequence: Vv00s0598g00010.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G062416_T02 (Zea mays), 3'ss of exon 3
tgtaaagctattcctctgattaaagcatgggatttaaattttcaatctcaaaaaaaagatcagtaactctctccctctctcttctcattctcttgtgcagTTTCCTTGGAAGGAGGTCTCCATTTTACCAGTTCAGTGGCATGCTTTATGTGTCGGTTTGTTTGCATCAATAATAGCACCTTTTGGAGGATTTTTTGCAA
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-gtaaa-taagcaattcgagcctaactcaaattctcaattggaaatggttacattcc-atctgttgctgttgctccaattagtttatttgtactgtacagTTTCCATGGCGAGAAATTGCAATTATGCCCGTTCAATGGCATGCATTAGCTCTTGGCTTGTTTGCTTCAATAATAGCACCATTTGGTGGCTTTTTTGCAA
upper sequence: Vv00s0598g00010.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G32660.2 (Glycine max), 3'ss of exon 8
tgtaaagctattcctctgattaaagcatgggatttaaattttcaatctcaaaaaaaagatcagtaactctctccctctctcttctcattctcttgtgcagTTTCCTTGGAAGGAGGTCTCCATTTTACCAGTTCAGTGGCATGCTTTATGTGTCGGTTTGTTTGCATCAATAATAGCACCTTTTGGAGGATTTTTTGCAA
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aataaaaaagtgaccattctgtattcatgagatgccaatctagattcctggaacgtctgaaaatcataacttacgacccattatatgctgtcttatgcagTTTTCTTGGAAAGAGATATCAATCCTACCAATTCAATGGCATTCTTTATGTCTAGGCTTGTTTGCTTCAATTATTGCACCTTTTGGAGGCTTCTTTGCAA
upper sequence: Vv00s0598g00010.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G34940.1 (Glycine max), 3'ss of exon 8
---tgtaaagctattcctctgattaaagcatgggatttaaattttcaatctcaaaaaaaagatcagtaactctctccctctctcttctcattctcttgtgcagTTTCCTTGGAAGGAGGTCTCCATTTTACCAGTTCAGTGGCATGCTTTATGTGTCGGTTTGTTTGCATCAATAATAGCACCTTTTGGAGGATTTTTTGCAA
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cattaaaaagtgaccattctgtatt---catgagatgctaatccagattcctggaacgtctgaaaatcataacttacgacccactatatgttgtcttatacagTTTGCTTGGAAAGAGATATCAATCCTACCAATTCAATGGCATTCTTTATGTCTTGGCTTGTTTGCTTCAATTATTGCACCTTTTGGAGGCTTCTTTGCAA
upper sequence: Vv00s0598g00010.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G62430.1 (Arabidopsis thaliana), 3'ss of exon 8
tgtaaagctattcctctgattaaagcatgggatt-taaattttcaatctcaaaaaaaagatcagta-actctctccctctctcttctcattctcttgtgcagTTTCCTTGGAAGGAGGTCTCCATTTTACCAGTTCAGTGGCATGCTTTATGTGTCGGTTTGTTTGCATCAATAATAGCACCTTTTGGAGGATTTTTTGCAA
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--tcttgttagctaacagatagtagtgttagactgtgcggttagcctttctgtttgaataatattgcatgaggtttctcaactttctagttcatttgtgcagTTTCCTTGGAAGGAAATGACGATCCTCCCTGTTCAGTGGCATGCTTTATGCCTCGGTTTGTTCGCTTCAATCATAGCACCTTTTGGAGGATTTTTCGCTA
upper sequence: Vv00s0598g00010.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT4G22340.3 (Arabidopsis thaliana), 3'ss of exon 7
tgtaaagctattcctctgattaaagcatgggatttaaattttcaatctcaaaaaaaagatc-agtaactctctccctctctcttctcat---tctcttgtgcagTTTCCTTGGAAGGAGGTCTCCATTTTACCAGTTCAGTGGCATGCTTTATGTGTCGGTTTGTTTGCATCAATAATAGCACCTTTTGGAGGATTTTTTGCAA
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-------------------gtaaagtctagaattgaattgtacaatactaaacaattactcgagcaactttattgcttcttaacgtgaggcgtttactttacagCTCCCTTGGAAGGAAATTTCGATTCTACCAGTCCAGTGGCATGCTCTATGTCTTGGATTGTTCGCCTCTATAATAGCTCCTTTTGGTGGCTTCTTTGCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctcaaaaaaaagatcagtaactctctccctctctcttctcattctcttgtgcagTTTCCTTGGAAGGAGGTCTCCATTTTACCAGTTCAGTGGCATGCTTTATGTGTCGGTTTGTTTGCATCAATAATAGCACCTTTTGGAGGATTTTTTGCAA
cagtaac putative branch site (score: 2)
tcagtaactctctccc CT-rich tract
aaaaaaagat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtaaagctattcctctgattaaagcatgggatttaaattttcaatctcaaaaaaaagatcagtaactctctccctctctcttctcattctcttgtgcagTTTCCTTGGAAGGAGGTCTCCATTTTACCAGTTCAGTGGCATGCTTTATGTGTCGGTTTGTTTGCATCAATAATAGCACCTTTTGGAGGATTTTTTGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - cctctga
- - - - - - - - - - - - gcatggg
- - - - - - - - - - - - - - - - - - - - - caatctc
- - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa