Sequence
atgc intronic sequence ATGC exonic sequencegtatatttttggaggcatgtcagctgagagtacctacaaggatattatttccaaaaattattctattttaaggaacaaaaaatggtgtttataaattatccaaaattcctttggaatttgaatgattgagatggttatggaaagtttaaggttttctactagtaacaagttgtactaaaggatatttttcccttctttagGTGTACATGTCGTATGTGCAGGCTTTGTATGGTGGAGGAGGTTGGCCCCTGAGTGTGTTTCTTTCACCTGACTTGAAACCTTTAATGGGTGGAACTTACT
Basic information
species | Glycine max |
transcript | GLYMA19G39560.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G39560.2 (Glycine max), 3'ss of exon 5
lower sequence: AT4G03200.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatatttttggaggcatgtcagctgagagtacctacaaggatattatttccaaaaattattctattttaaggaacaaaaaatggtgtttataaattatccaaaattcctttggaatttgaatgattgagatggttatggaaagtttaaggttttctactagtaacaagttgtactaaaggatatttttcc---cttctttagGTGTACATGTCGTATGTGCAGGCTTTGTATGGTGGAGGAGGTTGGCCCCTGAGTGTGTTTCTTTCACCTGACTTGAAACCTTTAATGGGTGGAACTTACT
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------------------------------------------------------------------------------------------------------agacttgtgtagaatttgttctagctggatcagtgtctactagagaaagtagcct-tgactatattcatggacttacgattctttttactggcacttttagGTTTATATGTCGTTCGTCCAGGCTCTGTATGGTGGAGGAGGGTGGCCACTGTCGGTATTCCTTTCACCTGATTTAAAGCCGTTGATGGGTGGAACCTACT
upper sequence: GLYMA19G39560.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0104g01480.t01 (Vitis vinifera), 3'ss of exon 5
gtatatttttggaggcatgtcagctgagagtacctacaaggatattatttccaaaaattattctattttaaggaacaaaaaatggtgtttataaattatccaaaattcctttggaatttgaatgattgagatggttatggaaagtttaaggttttctactagtaacaagttgtactaaaggatatttttcccttctttagGTGTACATGTCGTATGTGCAGGCTTTGTATGGTGGAGGAGGTTGGCCCCTGAGTGTGTTTCTTTCACCTGACTTGAAACCTTTAATGGGTGGAACTTACT
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------------------------------------------------------------------------------------------------tgtttcgt-ttcttttgtcactc--ttcagtttgctaactttcaaaattgttaa-ctgctaactgttttcaagtaaggctgagaaaattgtttcatctctccagGTATACATGACATATGTGCAGGCTTTATATGGTGGAGGGGGTTGGCCATTGAGTGTCTTCCTTTCACCTGATTTGAAACCTTTGATGGGTGGAACTTACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaggttttctactagtaacaagttgtactaaaggatatttttcccttctttagGTGTACATGTCGTATGTGCAGGCTTTGTATGGTGGAGGAGGTTGGCCCCTGAGTGTGTTTCTTTCACCTGACTTGAAACCTTTAATGGGTGGAACTTACT
tactaaa putative branch site (score: 1)
tatttttcccttcttt putative PPT
taaaggatattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatttttggaggcatgtcagctgagagtacctacaaggatattatttccaaaaattattctattttaaggaacaaaaaatggtgtttataaattatccaaaattcctttggaatttgaatgattgagatggttatggaaagtttaaggttttctactagtaacaagttgtactaaaggatatttttcccttctttagGTGTACATGTCGTATGTGCAGGCTTTGTATGGTGGAGGAGGTTGGCCCCTGAGTGTGTTTCTTTCACCTGACTTGAAACCTTTAATGGGTGGAACTTACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA