Sequence
atgc intronic sequence ATGC exonic sequence...gtaccatatttaatgctgatcctgttctcatttctgtgatagattaataacttgtccagtggtacagatcaaaattactgacagttaaaacttcttccagCCATCTTACATGTTTACAGATAAGGAACACCGGGGCCCATTTGAGTTCTCAGACGAACTTGGAAGTCTATCTATTGGGGCAGATTCTGCAGATAATGTCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os01g43630.2 (Oryza sativa), 3'ss of exon 11
gtaccatatttaatgctg---atcctgttctcatttct-gtgatagattaataacttgtccagtggtacagatcaaaattactgacagttaaaacttcttccagCCATCTTACATGTTTACAGATAAGGAACACCGGGGCCCATTTGAGTTCTCAGACGAACTTGGAAGTCTATCTATTGGGGCAGATTCTGCAGATAATGTCG
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gtacttctcttggtgttagctactctaatataattactcatgcta--ctattgaacaaatacatgtgaagtatcaatatgac--attatctttgcatttggcagCCATCTTACATGTTTACTGACAAGGAGCATCGTGGACCATTTGAGTACTCGGAGGATCTTACGAATTTGGCTGTCGGGGCAGAAACGACGGAAAACACCA
upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G029077_T01 (Zea mays), 3'ss of exon 9
gtaccatat-ttaatgctgatcctgttctcatttctgtgatagattaataacttgt--ccagtggtacagatcaaaattactgacagttaaaacttcttccagCCATCTTACATGTTTACAGATAAGGAACACCGGGGCCCATTTGAGTTCTCAGACGAACTTGGAAGTCTATCTATTGGGGCAGATTCTGCAGATAATGTCG
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-gagcatgtgttcatagcaaggcagctacgagctacccaa-atattgagtatatgttattaaaagtttgcataaaaggtactaacatctatgtatt-tggcagCCATCGTACATGTTTACAGATAAGGAGCATCGCGGACCATTTGAGTACTCAGAGGATCTTACAGGCTTGACTGAGGATCCAGAAAATGTAATTTCTGCCC
upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AC198725.4_FGT007 (Zea mays), 3'ss of exon 11
--gtaccatatttaatgctgatcctgttctcatttctgtg-atagattaataacttgtccagtggtacagatcaaaattactgacagttaaaacttcttccagCCATCTTACATGTTTACAGATAAGGAACACCGGGGCCCATTTGAGTTCTCAGACGAACTTGGAAGTCTATCTATTGGGGCAGATTCTGCAGATAATGTCG
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gctgacaggagcatgtgttcatagcaaggcagcttctcaatattgatta-tatgttattcaaagct-tgcataaaaggtactaacatctatgtatt-tggcagCCATCTTACATGTTTACAGATAGGGAGCATCGTGAGCCATTTGAATACTCAGAGGATCTTACAAGCTTGACTGTTGGGGCAGAGGATCCAGAAAATGTAA
upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA04G08480.1 (Glycine max), 3'ss of exon 9
gtaccatatttaatgctgatcctgttctcatttctgtgatagattaata--acttgtccagtggtacagatcaaaatt------actgacagttaaaacttcttccagCCATCTTACATGTTTACAGATAAGGAACACCGGGGCCCATTTGAGTTCTCAGACGAACTTGGAAGTCTATCTATTGGGGCAGATTCTGCAGATAATGTCG
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-------gtcttatagtaacgctacttgaaagt-tgaaacatgtttatattactgtgatgcttgtgtatattaaaatctgtcaaactaacaatagccaattcatgcagCCTTCTTATATGTTCACTGATAAGGAACACCGAGGGACATTTGAGTTTGCAGATGAACTTGGAAATCTATCTATTAGTGCAGAATCTTCAGATTCTGTTG
upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA06G08590.1 (Glycine max), 3'ss of exon 9
gtaccatatttaatgctgatcctgttctcatttctgtgatagattaataacttgtccagtggtacagatcaaaattactgacagttaaaacttcttccagCCATCTTACATGTTTACAGATAAGGAACACCGGGGCCCATTTGAGTTCTCAGACGAACTTGGAAGTCTATCTATTGGGGCAGATTCTGCAGATAATGTCG----------------------------------------------------
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--------------------------------------------------cttgtgta-tatta-aaatctgtcaaactaacaatagaaaattcatgcagccttcttatatgttcactgataaggaacaccgagggacatttgaatttgcagATGAACTTGGAAATCTATCTATTAGTGCAGAATCTGCAGATTCTGTTGTTCCAGCCCAGAGAGTGGAAGCAAATGACAAGGATCTGCTTCTAAGTACTTC
upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT5G11490.1 (Arabidopsis thaliana), 3'ss of exon 9
------gtaccatatttaatgctgatcctgttctcatttctgtgatagattaa--taacttgtccagtggtacagatcaaaattactgacagttaaa--acttcttccagCCATCTTACATGTTTACAGATAAGGAACACCGGGGCCCATTTGAGTTCTCAGACGAACTTGGAAGTCTATCTATTGGGGCAGATTCTGCAGATAATGTCG
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gtatgtttcctgactttactactgaagccaatgtagtagtatgcattcattagcctacattactcagaggtgttccttatatgttttcataataaaatgactttttgcagCCATCTTACATGTTTACGGATAAGGAACACCGAGGACCCTTTGAGTTTTCTGACGAAGTTGGAAATATTTCCATCACACCTGAAGCCTCCAGCGACATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aataacttgtccagtggtacagatcaaaattactgacagttaaaacttcttccagCCATCTTACATGTTTACAGATAAGGAACACCGGGGCCCATTTGAGTTCTCAGACGAACTTGGAAGTCTATCTATTGGGGCAGATTCTGCAGATAATGTCG
tactgac putative branch site (score: 1)
cttcttcc putative PPT
atcaaaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaccatatttaatgctgatcctgttctcatttctgtgatagattaataacttgtccagtggtacagatcaaaattactgacagttaaaacttcttccagCCATCTTACATGTTTACAGATAAGGAACACCGGGGCCCATTTGAGTTCTCAGACGAACTTGGAAGTCTATCTATTGGGGCAGATTCTGCAGATAATGTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - -ctgatcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaatta