Sequence
atgc intronic sequence ATGC exonic sequence...aatatacaagatgccaataaatcttttctgtagtgctaattatttgtttcaagggcatagctgcaaacatgatttgatgatataacttaactgctttcagGTTTCATTATTTAAAAGGTTGCTTCTAATGGTGAGAAACTTGAGAGCAGAATCGGACCGTATGCATGCTTTAGCCTGTATTTGTCGCACTGCACTTTGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0171g00280.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os02g55010.1 (Oryza sativa), 3'ss of exon 1
--aatatacaagatgccaataaatcttttctgtagtgctaattatttgtttcaagggcatagctgcaaacatgatttgatgatataacttaactgctttcagGTTTCATTATTTAAAAGGTTGCTTCTAATGGTGAGAAACTTGAGAGCAGAATCGGACCGTATGCATGCTTTAGCCTGTATTTGTCGCACTGCACTTTGTG
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tcacgatattagttgccactatattccctagcattaaccggcgatctgtgttacatgcata--taataacatggatttacaaaagtatgttttgtgatgcagGTGTCTCTGTTCAAAAGGCTGCTTCAAATGGTGAGGAATTTGAGAGCAGAATCAGATCGTATGCATGCATTGGCATGTATTTGTCGGACTGCTCTTTGTG
upper sequence: Vv14s0171g00280.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os11g07470.1 (Oryza sativa), 3'ss of exon 1
aatatacaagatgccaataaatcttttctgtagtgctaattatttgtttcaagggcatagctgcaaacatgatttgatgatataacttaactgctttcagGTTTCATTATTTAAAAGGTTGCTTCTAATGGTGAGAAACTTGAGAGCAGAATCGGACCGTATGCATGCTTTAGCCTGTATTTGTCGCACTGCACTTTGTG
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cagtttcttcccttctgtgcatgccttctgaagaatatgtgagtgtcataatgttaatttattccaagatcaatttacaaaagcatgttttatgacacagGTGTCTCTGTTCAAAAGACTTCTTCAGATGGTGAGAAACTTGAGAGCCGAATCAGATCGTATGCATGCATTGGCATGTATTTGTCGGACTGCTCTTTGTG
upper sequence: Vv14s0171g00280.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G162286_T01 (Zea mays), 3'ss of exon 1
-aatatac-aagatgccaataaatcttttctgtagtgctaattatttgtttcaagggcatagctgcaaacatgatttgatgatataacttaactgctttcagGTTTCATTATTTAAAAGGTTGCTTCTAATGGTGAGAAACTTGAGAGCAGAATCGGACCGTATGCATGCTTTAGCCTGTATTTGTCGCACTGCACTTTGTG
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agatatgttactgtgtttggaacaatagcttttaata-tagtagataatattgcgaatttatgttcaagatgtatttacttgaacatgtgctatgaca-cagGTCTCTCTATTCAAAAGACTGCTTCAGATGGTGAGAAACTTGAGAGCAGAATCAGATCGAATGCATGCTTTGGCATGTATTTGTCGGACTGCTCTTTGTG
upper sequence: Vv14s0171g00280.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G01780.1 (Arabidopsis thaliana), 3'ss of exon 1
aatatacaagatgccaataaatcttttctgtagtgctaattatttgtttcaagggcatagctgcaaac-atgattt---gatgatataactt--aactgctttc--agGTTTCATTATTTAAAAGGTTGCTTCTAATGGTGAGAAACTTGAGAGCAGAATCGGACCGTATGCATGCTTTAGCCTGTATTTGTCGCACTGCACTTTGTG
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-gtatgtcgttttttact---tcatttaagctcggttagttgtgtacctttgtcttgaagctgtggcctatgatttctgaatcattctttttggaatttgttacgaagGTTTCGTTGTTTAGAAGACTGCTGCTTATGGTGAGAAACTTGAGAGCAGAATCGGACAGGATGCACGCATTAGCCTGTATCTGTCGGACAGCTCTCTGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttcaagggcatagctgcaaacatgatttgatgatataacttaactgctttcagGTTTCATTATTTAAAAGGTTGCTTCTAATGGTGAGAAACTTGAGAGCAGAATCGGACCGTATGCATGCTTTAGCCTGTATTTGTCGCACTGCACTTTGTG
acttaac putative branch site (score: 3)
ctgctttc CT-rich tract
atttgatgatataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatatacaagatgccaataaatcttttctgtagtgctaattatttgtttcaagggcatagctgcaaacatgatttgatgatataacttaactgctttcagGTTTCATTATTTAAAAGGTTGCTTCTAATGGTGAGAAACTTGAGAGCAGAATCGGACCGTATGCATGCTTTAGCCTGTATTTGTCGCACTGCACTTTGTG
- -atacaaga
- - - - - - - -aataaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - -catagct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcaaaca