Sequence
atgc intronic sequence ATGC exonic sequencegtattctttctagatgtattatattgccatttgcctacaaagctgctttttctagtgtaacttcggttataatatttcttgtacgttttctttagTTGGTTGGTATGAGGCCATTAGAGAGGTCACTGGAGAAACTTGATGACGTTAGAAGAAAGAAGCTTGCTGAAATGATTGGAAATTCTGGGGGTGGTGTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0116g00460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G32430.1 (Glycine max), 3'ss of exon 14
gtattctttctagatgtattatattgccatttgcctacaaagctgctttttctagtgtaacttcggttataatatttcttgtacgttttctttagTTGGTTGGTATGAGGCCATTAGAGAGGTCACTGGAGAAACTTGATGACGTTAGAAGAAAGAAGCTTGCTGAAATGATTGGAAATTCTGGGGGTGGTGTAA
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gtaaaacttgttacaactacatctgcttgcgtgcttgtgaatgtgcttttgctgttgagattttgagcatcatattgttcac---tctgttatagTCAGTTGGCATGAGACCTCTGGAGAGGTCGCTGGAGAAACTTGATGATGTTAGAAGAAAGAAGCTTTCGGAAATGATTTCAG------------------
upper sequence: Vv10s0116g00460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G35140.1 (Glycine max), 3'ss of exon 16
---gtattctttctagatgtattatattgccatttgcctacaaagctgctttttctagtgtaacttcggttataatatttcttgtacgttttctttagTTGGTTGGTATGAGGCCATTAGAGAGGTCACTGGAGAAACTTGATGACGTTAGAAGAAAGAAGCTTGCTGAAATGATTGGAAATTCTGGGGGTGGTGTAA
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gtaaaactcatcacaactacatctgcttgcg---tgcttgtgaatgtgcttttgctgttgaggttttgagcatcatattgttcac---tctgttatagTCAGTTGGCATGAGACCTCTGGAGAGATCGTTGGAGAAACTTGATGATGTTAGAAGAAAGAAGCTTTCGGAAATGATTTCAGGTTCTGAAGATGCTGTGC
upper sequence: Vv10s0116g00460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G35630.1 (Arabidopsis thaliana), 3'ss of exon 13
---------------------------------------------------------------gtattctttcta-gatgtattatattgccatttgcctacaaagctgctttttctagtgtaacttcggttataatatttcttgtacgttttctttagTTGGTTGGTATGAGGCCATTAGAGAGGTCACTGGAGAAACTTGATGACGTTAGAAGAAAGAAGCTTGCTGAAATGATTGGAAATTCTGGGGGTGGTGTAA
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gtattaattttatattgtgctttgtaacagcaacctttttgcgttgttgtctgtggtacattaatgttgtacacatgttagaatatgtggataaatgagtatcgt-ttacttcatgttttactattcccgtttgtttattatcttttggttat-tttagTCTGTAGGTATGAGACCTTTGGAAAGGTCGTTGGAAAAACTTGATGATGTTAGAAAAAAGAAACTTTCAGAAATGATTGCAGGCTCTGGTGGTGGTGACC
upper sequence: Vv10s0116g00460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ11209 (Selaginella moellendorffii), 3'ss of exon 13
gtattctttctagatgtattatattgccatttgcctacaaagctgctttttctagtgtaacttcggttataatatttcttgtacgttttctttagTTGGTTGGTATGAGGCCATTAGAGAGGTCACTGGAGAAACTTGATGACGTTAGAAGAAAGAAGCTTGCTGAAATGATTGGAAATTCTGGGGGTGGTGTAA---
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----------------------------------gtgggataatcagttcgctcgt-ttgtttagagactaatgtcccttct-ctcgtctttcagCACTTGGGCATGAAGCCACTTGAACGTTCTTTAGAAAAACTTGATGAAGTCAGAAGAAAGAAGCTGACTGAAATGATTGG---TTCCGGCCCCGGTTCGAACA
upper sequence: Vv10s0116g00460.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ15655 (Selaginella moellendorffii), 3'ss of exon 13
gtattctttctagatgtattatattgccatttgcctacaaagctgctttttctagtgtaacttcggttataatatttcttgtacgttttctttagTTGGTTGGTATGAGGCCATTAGAGAGGTCACTGGAGAAACTTGATGACGTTAGAAGAAAGAAGCTTGCTGAAATGATTGGAAATTCTGGGGGTGGTGTAA---
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----------------------------------gtgggataatcagttcgctcgt-ttgtttagagactaatgtcccttctcc-cgtctttcagCACTTGGGCATGAAGCCACTTGAACGTTCTTTAGAAAAACTTGATGAAGTCAGAAGAAAGAAGCTGACTGAAATGATTGG---TTCCGGTCCCGGTTCGAACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agctgctttttctagtgtaacttcggttataatatttcttgtacgttttctttagTTGGTTGGTATGAGGCCATTAGAGAGGTCACTGGAGAAACTTGATGACGTTAGAAGAAAGAAGCTTGCTGAAATGATTGGAAATTCTGGGGGTGGTGTAA
gtgtaac putative branch site (score: 3)
cgttttcttt putative PPT
ttataatatttcttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattctttctagatgtattatattgccatttgcctacaaagctgctttttctagtgtaacttcggttataatatttcttgtacgttttctttagTTGGTTGGTATGAGGCCATTAGAGAGGTCACTGGAGAAACTTGATGACGTTAGAAGAAAGAAGCTTGCTGAAATGATTGGAAATTCTGGGGGTGGTGTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC