Sequence
atgc intronic sequence ATGC exonic sequencegtgatttttcagtgtactgattttctactggaattttcttacttatcattaccattgtgttgaatgactagtttctaccaagttgattgttattctattctgaggcagGCGTGTGAGGTGTTGTCAAAACCACAAAAATCACTTGCTTACTTACTTGAAACGTATTGTGGAGTAGCAACAAACAAATTGTTACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0059g00620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G10530.1 (Glycine max), 3'ss of exon 7
------------gtgatttttcagtgtactgattttctactggaattt---tcttacttatcattaccattgtgttgaa---tgactagtttctaccaagttgattgttattctattctgaggcagGCGTGTGAGGTGTTGTCAAAACCACAAAAATCACTTGCTTACTTACTTGAAACGTATTGTGGAGTAGCAACAAACAAATTGTTACAG
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gtaccatacagaattttctcctcctgcataacagaactggagaattttgccttttgcaattgattggcaataactttatttttatttttatttttttaatatcagtgtgttgttcatgtactgcagGCATGTGAGGTGATGTCAAAACCACAGAAATCACTTGCTTATTTGCTTGAAACTTACTGTGGTGTGACAACAAATAAATTATTACAG
upper sequence: Vv12s0059g00620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G46220.1 (Glycine max), 3'ss of exon 4
----------------------------------------------------------------------gtgatttttcagtgtactgattttctactggaattttcttacttatcattaccattgtgttgaatgactagtttctaccaagttgat-tgttattctattctgaggcagGCGTGTGAGGTGTTGTCAAAACCACAAAAATCACTTGCTTACTTACTTGAAACGTATTGTGGAGTAGCAACAAACAAATTGTTACAG
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gtgagctgcctatacatgttgccactatcatgtcaccggaccttgtactggatgccatgtaccatacagaattttctccccatgcataacagaactggagaagtttgcct-tttggcatttactttatttt--atttttattttt--ctaaatcagtgtgttgttca--tgtactgcagGCATGCGAGGTGCTGTCAAAACCACAGAAATCCCTTGCTTATTTGCTTGAAACTTACTGCGGTGTGACAACAAATAAATTATTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgtgttgaatgactagtttctaccaagttgattgttattctattctgaggcagGCGTGTGAGGTGTTGTCAAAACCACAAAAATCACTTGCTTACTTACTTGAAACGTATTGTGGAGTAGCAACAAACAAATTGTTACAG
agttgat putative branch site (score: 5)
ttctattct putative PPT
attgttattctatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatttttcagtgtactgattttctactggaattttcttacttatcattaccattgtgttgaatgactagtttctaccaagttgattgttattctattctgaggcagGCGTGTGAGGTGTTGTCAAAACCACAAAAATCACTTGCTTACTTACTTGAAACGTATTGTGGAGTAGCAACAAACAAATTGTTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG