Sequence
atgc intronic sequence ATGC exonic sequence...ttttccagtttatcgaaaaaagagaagtttgtatgatattatttaaatttgtgagggtcgattgccaaaattaaatagaacatatttctcctaaatgcagGGTCTAATCGAAGAGAAAAAGGTTGATTCATTCGATGCTCCATACTATGCACCAAGTCCGGAAGAAGTGAAATTTGGAATATACAAAGAGGGGTCATTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g12890.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA14G07890.1 (Glycine max), 3'ss of exon 3
ttttccagtttatcgaaaaaagagaagtttgtatgatattatttaaatttgtgagggtcgattgccaaaattaaatagaacatatttct--cctaaatgcagGGTCTAATCGAAGAGAAAAAGGTTGATTCATTCGATGCTCCATACTATGCACCAAGTCCGGAAGAAGTGAAATTTGGAATATACAAAGAGGGGTCATTCA
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ttaacaatattgttggatctttccaaaattatatttggccatata--tgtgtcaaaattagagagggaatttatgagaaaaattcttgtggtatatatgtagGGTCTTTTAGAAGAGGAAAAGGTGGATTCTTTTGACGCTCCATACTATGCACCATGCTTGGAGGAAATGAAAATGGAGATTCAAAAGGAAGGGTCATTCA
upper sequence: Vv18s0001g12890.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G37120.1 (Glycine max), 3'ss of exon 3
ttttccagtttatcgaaaaaagagaagtttgta-tgatattatttaaatt--tgtgagggtcgattgccaaaattaaatagaacatatttctcc------taaatgcagGGTCTAATCGAAGAGAAAAAGGTTGATTCATTCGATGCTCCATACTATGCACCAAGTCCGGAAGAAGTGAAATTTGGAATATACAAAGAGGGGTCATTCA
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--------ttcat-aaaaaaaaagaagctaaaactagagttggttaaatatatgtgaaaataagagatggaatttatgagaaaaattcttgtgcatggtatatatgtagGGTCTTTTAGAAGAGGAAAAGGTGGATTCTTTTGACGCTCCATACTATGCACCATGCTTGGAGGAAATGAAAATGGAGATTCAAAAGGAAGGGTCATTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatttgtgagggtcgattgccaaaattaaatagaacatatttctcctaaatgcagGGTCTAATCGAAGAGAAAAAGGTTGATTCATTCGATGCTCCATACTATGCACCAAGTCCGGAAGAAGTGAAATTTGGAATATACAAAGAGGGGTCATTCA
tcctaaa putative branch site (score: 2)
tatttctcct CT-rich tract
aaaattaaatagaaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttccagtttatcgaaaaaagagaagtttgtatgatattatttaaatttgtgagggtcgattgccaaaattaaatagaacatatttctcctaaatgcagGGTCTAATCGAAGAGAAAAAGGTTGATTCATTCGATGCTCCATACTATGCACCAAGTCCGGAAGAAGTGAAATTTGGAATATACAAAGAGGGGTCATTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - gaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - gtgaggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gattgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaattaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atagaaca