Sequence
atgc intronic sequence ATGC exonic sequence...cttttaatttgaggtgcttccaaatgtttcccatgtgaaatcctctgttttgaagtactgccgttaggcatgttttgatatgtgatcttccatgtttcagGTATAGTCCATTCCTCATGGCTTGTTACAACCCTGACACAGAGGAATTCCAAAGTGTATGTCGTGTCATGTCAGGGTTCTCAGATAATTTCTACAAAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0006g02210.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA18G53000.1 (Glycine max), 3'ss of exon 16
cttttaatttgaggtgcttccaaatgtttc--ccatgtga-aatcctctgttttgaagtactgccgttaggca-tgtt-ttgatatgtgatcttccatgttt-cagGTATAGTCCATTCCTCATGGCTTGTTACAACCCTGACACAGAGGAATTCCAAAGTGTATGTCGTGTCATGTCAGGGTTCTCAGATAATTTCTACAAAGAG
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-----agaaaaaggaacatgcattttttgtggcttcacaatgattttattttttgtacaagtgatttactgcactgttgttaatctg-gatcttttacttttgcagGTATAGTCCATTTCTTATGGCATGTTTCAATCCTGAAACAGAGGAGTATCAAAGTGTATGTCGTGTGATGTCTGGATTCTCAGATTCATTTTACATAGAG
upper sequence: Vv14s0006g02210.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G66730.1 (Arabidopsis thaliana), 3'ss of exon 17
----------------------cttttaatttgaggtgcttccaaatgt----ttcccatgtgaaatcctctgtt--ttgaagtactgccgttaggcatgttttgatatgt----gatcttccatgtttcagGTATAGTCCATTCCTCATGGCTTGTTACAACCCTGACACAGAGGAATTCCAAAGTGTATGTCGTGTCATGTCAGGGTTCTCAGATAATTTCTACAAAGAG
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gtagtaaaaacatattttccaactttctctttttttttttctgaaaagcagaattgtaatcataagtttactggtaatttctcaaatgcatcttgatgaattctgatgttttttatatattttgtgtgt-agGTATAGTCCATTCCTTATGGCCTGCTTCAACCCTGAGACTGAAGAATTCCAGAGTGTCTGCCGTGTCATGTCTGGTTTTTCTGATGCCTTTTACATCGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttttgaagtactgccgttaggcatgttttgatatgtgatcttccatgtttcagGTATAGTCCATTCCTCATGGCTTGTTACAACCCTGACACAGAGGAATTCCAAAGTGTATGTCGTGTCATGTCAGGGTTCTCAGATAATTTCTACAAAGAG
ttttgat putative branch site (score: 4)
tcttccat putative PPT
ttttgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttttaatttgaggtgcttccaaatgtttcccatgtgaaatcctctgttttgaagtactgccgttaggcatgttttgatatgtgatcttccatgtttcagGTATAGTCCATTCCTCATGGCTTGTTACAACCCTGACACAGAGGAATTCCAAAGTGTATGTCGTGTCATGTCAGGGTTCTCAGATAATTTCTACAAAGAG
- - - - - - - -gcttcca
- - - - - - - - - - - - - - -cccatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - actgccg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgtt