Sequence
atgc intronic sequence ATGC exonic sequence...gacctgctttaggattacttttctgaaaactgtctttgttgaaactttgaacatggatttataattaggttgatggatttcatttttcccctttctgtagACACAAAATGATCTCCAGTATGTCAAGGAGGACATAAATGTTGTAGAGAGACATAGAATAGAGTTGTACCGGGTGAGGGACAGGTACTCAGTAAAACTGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0059g01420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G05430.1 (Glycine max), 3'ss of exon 3
---------------------------------------------------------------------gacctgctttaggattacttttctgaaaactg-tctttgttga-----aactttga----acatggatttataattaggttgatggatttcatttttcccctt--tctgtagACACAAAATGATCTCCAGTATGTCAAGGAGGACATAAATGTTGTAGAGAGACATAGAATAGAGTTGTACCGGGTGAGGGACAGGTACTCAGTAAAACTGC
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gtgtgcttgctgcaatctctctccctctactctaaagtctaaactattgctaagtagctaatgtttcccattttttttctttcctgtgcttgcggtagttggtcattatttactactgatttccatgttacatctatttttacttattgcaacaattggtgtttcgtgctttcatttgtagGTACAAACTGATCTCCAGTTTATAAAAGAGGACATTAATGCTGTGGAGAAACATAGAATGGATTTGTATCGTGCACGGGACAGGTACTCTGTAAAATTAC
upper sequence: Vv12s0059g01420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G43540.2 (Glycine max), 3'ss of exon 3
-----------------------------------------------------------------------gacctgctttaggattactttt-ctgaaaactgtctttgttgaaactttga----acatggatttataattaggttgatggatttcatttttcccctt--tctgtagACACAAAATGATCTCCAGTATGTCAAGGAGGACATAAATGTTGTAGAGAGACATAGAATAGAGTTGTACCGGGTGAGGGACAGGTACTCAGTAAAACTGC
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gtgtgcttgctgcaatctctctctccctctactctaaattattgctaagtagctaatgttttccatttttttttctttcctctgtttgcagtagttggtcattatcttaccactgatttctatgttacatctgtttttacttattgcaacaaatggtgtttcatactttcatttgtagGTACAAACTGATCTCCACTTTATAAAAGAGGACATAAATGCTGTGGAGAAACATAGAATGGAATTGTATCGTGCACGGGACAGGTACTCTGTAAAATTGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgaacatggatttataattaggttgatggatttcatttttcccctttctgtagACACAAAATGATCTCCAGTATGTCAAGGAGGACATAAATGTTGTAGAGAGACATAGAATAGAGTTGTACCGGGTGAGGGACAGGTACTCAGTAAAACTGC
ggttgat putative branch site (score: 5)
tttcatttttcccctt putative PPT
atggatttataatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gacctgctttaggattacttttctgaaaactgtctttgttgaaactttgaacatggatttataattaggttgatggatttcatttttcccctttctgtagACACAAAATGATCTCCAGTATGTCAAGGAGGACATAAATGTTGTAGAGAGACATAGAATAGAGTTGTACCGGGTGAGGGACAGGTACTCAGTAAAACTGC
- cctgctt
- - - - - - - - - - - -tgaaaac
- - - - - - - - - - - - - - - - - - - - - - - - gaacatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgga