Sequence
atgc intronic sequence ATGC exonic sequence...attttgtgaatgaccatatagttactatgttttttataaatatgttgattgcatttattgtttatctttatgggaacaaagtgtcattattctatggcagATCTGTTGTGCAAGGCTAACATGAATACTGGGAGTGTGCTGGAATATGCCCTTGCTTTTACAAGTGCAGCCTTGGATAAATATTGCAGTAAATGGAGTGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0043g00740.t01 (Vitis vinifera), 3'ss of exon 26
lower sequence: LOC_Os03g05020.1 (Oryza sativa), 3'ss of exon 24
attttgtgaatgaccatatagttactatgttttttataaatatgttgattgcatttattgtttatctttatgggaa--caaagtgtcatt-attctatggcagATCTGTTGTGCAAGGCTAACATGAATACTGGGAGTGTGCTGGAATATGCCCTTGCTTTTACAAGTGCAGCCTTGGATAAATATTGCAGTAAATGGAGTGC
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gctatctaaaccagttagtctttgct-tgaatgggttgagtacg--ggtggcatatcatcctaattgttgttgaacactgagatttggttgaaatttctacagGTCTACTCTACAAATCAAACCTAAACTCTGGGAGTGTGCTTGAGTATGCTCTTGCTTTCACGAGTGCTGCGCTGGATAGGCATTACAGTAAATGGAGTGC
upper sequence: Vv04s0043g00740.t01 (Vitis vinifera), 3'ss of exon 26
lower sequence: GLYMA19G43970.1 (Glycine max), 3'ss of exon 27
--attttgtgaatgaccatatagttactatgttttttataaatatgttgattgcatttattgtttatctttatgggaacaaagtgtcattattctatggcagATCTGTTGTGCAAGGCTAACATGAATACTGGGAGTGTGCTGGAATATGCCCTTGCTTTTACAAGTGCAGCCTTGGATAAATATTGCAGTAAATGGAGTGC
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aaatcttctaga-atccttatttgaaattcaaaataaaagcacatacagctggcaac-atgatcttttcatagtagctcagacattgtttcttttgttacagATCTTTTATACAAGGCTAACTTGAACACTGGAAGTGTGCTGGAGTATGCACTTGCTTTCGCTAGTGCTGCGTTGGATAAATATTGTAATAAATGGAGTGC
upper sequence: Vv04s0043g00740.t01 (Vitis vinifera), 3'ss of exon 26
lower sequence: GLYMA03G41350.1 (Glycine max), 3'ss of exon 28
attttgtgaatgaccatatagttactatgttttttataaatat-gttgattgcatttattgtttatctttatgggaacaaagtgtcattattctatggcagATCTGTTGTGCAAGGCTAACATGAATACTGGGAGTGTGCTGGAATATGCCCTTGCTTTTACAAGTGCAGCCTTGGATAAATATTGCAGTAAATGGAGTGC
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-cttctagaatccttatttaaaatttaaaataaaagcacatacagctgtcaacatgatcttttcatagtagctcaaacatacactgtttcttttattacagATCTTTTATACAAGGCTAACTTGAACACTGGAAGTGTGCTGGAGTATGCACTTGCTTTCACTAGTGCTGCGTTGGACAAGTATTGTAATAAATGGAGTGC
upper sequence: Vv04s0043g00740.t01 (Vitis vinifera), 3'ss of exon 26
lower sequence: AT5G18410.1 (Arabidopsis thaliana), 3'ss of exon 28
attttgtgaatgaccata--tagttactatgttttttataaatatgttgattgcatttattgtttatctttatgggaacaaagtgtcattattctatg-gcagATCTGTTGTGCAAGGCTAACATGAATACTGGGAGTGTGCTGGAATATGCCCTTGCTTTTACAAGTGCAGCCTTGGATAAATATTGCAGTAAATGGAGTGC
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-gttaattaagagctgtagctattcatcacccgtttcctttttactctttcttttttttgtgacagttttaatcttttcg--gtattat-attatatgtgcagATCTTTTGTACAAGGCAAACATGAACGGTGGGAGTGTTCTTGAATACACACTTGCATTCACAAGTGCGTCGCTCGACAAATATTGCAGTAAATGGAGTGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgattgcatttattgtttatctttatgggaacaaagtgtcattattctatggcagATCTGTTGTGCAAGGCTAACATGAATACTGGGAGTGTGCTGGAATATGCCCTTGCTTTTACAAGTGCAGCCTTGGATAAATATTGCAGTAAATGGAGTGC
tgttgat putative branch site (score: 4)
ttattct putative PPT
atttattgtttatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attttgtgaatgaccatatagttactatgttttttataaatatgttgattgcatttattgtttatctttatgggaacaaagtgtcattattctatggcagATCTGTTGTGCAAGGCTAACATGAATACTGGGAGTGTGCTGGAATATGCCCTTGCTTTTACAAGTGCAGCCTTGGATAAATATTGCAGTAAATGGAGTGC
- - -gtgaatg
- - - - - - -ccatata
- - - - - - - - - - - - - - - - - -ataaata
- - - - - - - - - - - - - - - - - - - - - - -tgattgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaacaa