Sequence
atgc intronic sequence ATGC exonic sequencegcaagtttttcaagattaccttaatcgctttcattagtgcttttgttaaaattaaattagtattcttcaggtaaacttggaggagactatagcttccatgcttaaacatgctccaagttttactatactaatttaactttgggtgtcacagGTGGAAGTAAATCTTCTCACTGGAGAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGGCAAAGCCTCAACCCTGCTGTGGATTTAGGACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0041g02390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G044469_T02 (Zea mays), 3'ss of exon 1
gcaagtttttcaagattaccttaatcgctttcattagtgcttttgttaaaattaaattagtattcttcaggtaaacttggaggagactatagcttccatgcttaaacatgctccaagttttactatactaatttaactttgggtgtcacagGTGGAAGTAAATCTTCTCACTGGAGAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGGCAAAGCCTCAACCCTGCTGTGGATTTAGGACAG
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-----------------------gtaccttgttttacaccttaagtttggtttaagataaactgctctagacag-cagaatgataacagtaa-----atgaccaaa-atg-tataaatct--ctatgctaagatagtgttcaatgttgcagGTAGAGATTGATCTTCTCACTGGAGCCTCCACAATTGTTCGAAGTGATCTTATATATGACTGTGGCCAGAGCTTAAACCCTGCTGTGGACTTGGGACAG
upper sequence: Vv18s0041g02390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G44000.1 (Glycine max), 3'ss of exon 7
gcaagtttttcaagattaccttaatcgctttcattagtgcttttgttaaaattaaattagtattcttcaggtaaacttggaggagactatagcttccatgcttaaacatgctccaagttttactatactaatttaactttgggtgtcacagGTGGAAGTAAATCTTCTCACTGGAGAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGGCAAAGCCTCAACCCTGCTGTGGATTTAGGACAG
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----------------------------------------ttctgctaa--tcaattc--tatttacaacacaagcc---atcttactgaatcaattgaaccaaattatgatgaatgatacactaaa-taatggacact---gtttctcagGTGGAAATAGATCTTCTGACTGGAGAAACCAGATGTTTGCAGACAGATATTATCTATGATTGTGGACAGAGTCTCAACCCAGCTGTGGATTTAGGACAG
upper sequence: Vv18s0041g02390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA14G04950.1 (Glycine max), 3'ss of exon 7
----------------------gcaagtttt---tcaagattac-cttaatcgctttcattagtgcttttgttaaaattaaatta-gtattcttcaggtaaacttggaggagac-tatagcttccatgcttaaacatgct--ccaagttttactatactaattta-actttgggtgtcacagGTGGAAGTAAATCTTCTCACTGGAGAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGGCAAAGCCTCAACCCTGCTGTGGATTTAGGACAG
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gtaagatggtttttttttctatgcatatctcaaatcaaagttgtattttctcaagttaattggtagttacttctcttgaatgttaagtgcttatgtcatattttcagacaagccatgttactgaagtaactaaaccaacttatcttatactgccatgctaaatagtggaaatgatttctcagGTGGAAATAGATCTTCTGAATGGAGAAACCAGATTTTTGCAAACAGATATTATTTACGATTGTGGACAGAGTCTAAACCCTGCTGTGGATTTAGGACAG
upper sequence: Vv18s0041g02390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G44000.2 (Glycine max), 3'ss of exon 2
-----------------------------gcaagtttt---tcaagattac-cttaatcgctttcattagt----gcttttgttaaaattaaattagtattcttcaggtaaacttggaggagactatagcttccatgcttaaacatgctccaagttttact-atactaattta-actttgggtgtcacagGTGGAAGTAAATCTTCTCACTGGAGAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGGCAAAGCCTCAACCCTGCTGTGGATTTAGGACAG
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gtaggtcgtttttattttttgttccatatgcatatctcaaatcaaaatggtattttctctagttcattaataataacttctcttgaatgttaagtgataatgt-caaattttctcaaaaacca-tgttactgaagtaattgagcctactt-atcttatactgattctaaataatggaatttatttctcagGTGGAAATTGATCTTCTGAATGGAGAAACCAGATTTTTGCAAACAGACATTATTTATGATTGTGGACAGAGTCTAAACCCTGCTGTTGATTTAGGACAG
upper sequence: Vv18s0041g02390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G04580.1 (Arabidopsis thaliana), 3'ss of exon 7
gcaagtttttcaagattaccttaatcgctttcattagtgcttttgttaaaattaaattagtattcttcaggtaaacttggaggagactatagcttccatgcttaaacatgctccaagttttactatactaatttaactttgggtgtcacagGTGGAAGTAAATCTTCTCACTGGAGAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGGCAAAGCCTCAACCCTGCTGTGGATTTAGGACAG
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---------------------------------------------------------gtgaatctcatagccaatattttaa---accat----tccctgagataaaatcagtaaaacttgaatatatatatatatgtaaaaatat-gcagGTGGAGGTTGACCTTGTGACAGGAAGAACAGAAATTATAAGATCAGATATTATCTATGACTGTGGAAAAAGCCTTAATCCTGCTGTTGATTTAGGACAG
upper sequence: Vv18s0041g02390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G02590.1 (Arabidopsis thaliana), 3'ss of exon 2
gcaagtttttcaagattaccttaatcgctttcattagtgcttttgttaaaattaaattagtattcttcaggtaaacttggaggagactatagcttccatgcttaaacatgctccaagttttactatactaatttaactttgggtgtcacagGTGGAAGTAAATCTTCTCACTGGAGAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGGCAAAGCCTCAACCCTGCTGTGGATTTAGGACAG
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---------------------------------------------------------gtgaatctcatagccaatattttaa---accat----tccctgagataaaatcagtaaaatttgaatatatatatgtaa----aaatgt-gcagGTGGAGGTTGACCTTGTGACAGGAAAAACAGAATTTATAAGATCAGATATTATCTATGACTGTGGTAAAAGCCTTAATCCTGCTATTGATTTAGGACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgcttaaacatgctccaagttttactatactaatttaactttgggtgtcacagGTGGAAGTAAATCTTCTCACTGGAGAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGGCAAAGCCTCAACCCTGCTGTGGATTTAGGACAG
ttttactatactaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaagtttttcaagattaccttaatcgctttcattagtgcttttgttaaaattaaattagtattcttcaggtaaacttggaggagactatagcttccatgcttaaacatgctccaagttttactatactaatttaactttgggtgtcacagGTGGAAGTAAATCTTCTCACTGGAGAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGGCAAAGCCTCAACCCTGCTGTGGATTTAGGACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG