Sequence
atgc intronic sequence ATGC exonic sequencegtagttaatttatgggcatctttctttatgtgcatgtattccatatctgatactaatctagaaccaactacatttaatgtagttgagatttaaagctttcttaaattaatttggttactattttttttttcatttttgttttcctctttttttagGCAACCTGTACTTCAGGGTGATAACTGGTGGCGAGGTCATGCAGCAGCCTTTCTGAAATATGTTCGTTTATCCCCAGAAGTACTTCGACTAGGTCGTGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0124g00140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G44440.1 (Glycine max), 3'ss of exon 4
-------------------------------gta-gttaatttatgggcatctttctttatgtgcatgtattccatatctgatactaatctagaaccaactacatttaatgtagttgagatttaaagctttcttaaattaatttggttactattttttttttcatttttgttttcctctttttttagGCAACCTGTACTTCAGGGTGATAACTGGTGGCGAGGTCATGCAGCAGCCTTTCTGAAATATGTTCGTTTATCCCCAGAAGTACTTCGACTAGGTCGTGTT-
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gtatttttctttagaactcattggctctcaggcatactgaattactgatatatatatctttg-gttttcctccattctctccgtctctcctctctccctttacattatgtctttttcaatatacaaattaaaaaaaattcatct--tcaatattgtgattttatgttcctatttcatatcttcttagACA-CCCATACTGGATGGTGATAACTGGTGGCGAGGTCATGCTGCAGCCTTTCTAAAGTATGTCAATTTGCCTCCAGAAGCGCTTATACATGGGCGAGTCA
upper sequence: Vv05s0124g00140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G39210.1 (Glycine max), 3'ss of exon 5
gtagttaatttatgggcatctttctttatgtgcatgtattccatatctgatactaatctagaaccaactacatttaatgtagttgagatttaaagctttcttaaattaatttggttactattttttttttcatttttgttttcctctttttttagGCAACCTGTACTTCAGGGTGATAACTGGTGGCGAGGTCATGCAGCAGCCTTTCTGAAATATGTTCGTTTATCCCCAGAAGTACTTCGACTAGGTCGTGTT
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------------------------------------------------ttctttcatcttaagaaaagaaaacttattat--tttgtact---attttggtttagtaaatctatgcacaatatgatttat-gttcctatttcaca-tcttcttagACGACCTGTACTGGATGGTGATAACTGGTGGCGAGGTCATGCTGCAGCCTTTCTAAAGTACGTCAATTTGCCTCCAGAAGCGCTTAGACATGGGCGAGTC
upper sequence: Vv05s0124g00140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G05790.2 (Arabidopsis thaliana), 3'ss of exon 6
gtagttaatttatgggcatctttctttatgtg-catgtattccatatctgatactaatctagaaccaactacatttaatgtagttgagatttaaagctttcttaaattaatttggttactattttttttttcatttttgttttcctctttttttagGCAACCTGTACTTCAGGGTGATAACTGGTGGCGAGGTCATGCAGCAGCCTTTCTGAAATATGTTCGTTTATCCCCAGAAGTACTTCGACTAGGTCGTGTT
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gtatactatacctggttagctcgtttgaagaaactcaacttgtttctttgaagtttactctttccagttttcatacctttcccttgtg-tctgatcttgatacggacaaatacatattatatcaatgtaagaaacttc-cttgcaattatttgcagGCGGCCTAAACTTGATGGTGATAATTGGTGGCGAGGTCATGCAGCTGCCTTCCTTAAGTTCATAAATTTTCCTGCTCATGTTCTTCGACGAGGCCGAATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaattaatttggttactattttttttttcatttttgttttcctctttttttagGCAACCTGTACTTCAGGGTGATAACTGGTGGCGAGGTCATGCAGCAGCCTTTCTGAAATATGTTCGTTTATCCCCAGAAGTACTTCGACTAGGTCGTGTT
aattaat putative branch site (score: 3)
ttactatttttttttt putative PPT
ttaatttggttactat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagttaatttatgggcatctttctttatgtgcatgtattccatatctgatactaatctagaaccaactacatttaatgtagttgagatttaaagctttcttaaattaatttggttactattttttttttcatttttgttttcctctttttttagGCAACCTGTACTTCAGGGTGATAACTGGTGGCGAGGTCATGCAGCAGCCTTTCTGAAATATGTTCGTTTATCCCCAGAAGTACTTCGACTAGGTCGTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT