Sequence
atgc intronic sequence ATGC exonic sequence...attaagttagtattcttcaggtaaacttggaggagactaggctttcatgcttaaccatgcttcaatttttactataataatgaaacattgggtgtcacagGTGGAGGTAAATCTTCTCACTGGACAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGTCAGAGTCTCAACCCTGCTGTGGATTTAGGACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0041g02410.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G044469_T02 (Zea mays), 3'ss of exon 1
----------------attaagttagtattcttcaggtaaact----tggaggagactaggctttca-tgcttaaccatgcttcaatttttactataataatgaaacattgggtgtcacagGTGGAGGTAAATCTTCTCACTGGACAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGTCAGAGTCTCAACCCTGCTGTGGATTTAGGACAG
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gtaccttgttttacaccttaagtttgg---tttaagataaactgctctagacagcagaatgataacagtaaatgaccaaaatgtataaatctctatgctaagatagtgttcaatgttgcagGTAGAGATTGATCTTCTCACTGGAGCCTCCACAATTGTTCGAAGTGATCTTATATATGACTGTGGCCAGAGCTTAAACCCTGCTGTGGACTTGGGACAG
upper sequence: Vv18s0041g02410.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G44000.1 (Glycine max), 3'ss of exon 7
attaagttagtattcttcaggtaaacttggaggagactaggctttcatgcttaaccatgcttcaatttttactataataa-tgaaacattgggtgtcacagGTGGAGGTAAATCTTCTCACTGGACAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGTCAGAGTCTCAACCCTGCTGTGGATTTAGGACAG
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-ttctgctaatcaattctatttacaacacaagccatcttactgaatcaattgaaccaaattatgatgaatgatacactaaataatggacactgtttctcagGTGGAAATAGATCTTCTGACTGGAGAAACCAGATGTTTGCAGACAGATATTATCTATGATTGTGGACAGAGTCTCAACCCAGCTGTGGATTTAGGACAG
upper sequence: Vv18s0041g02410.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA14G04950.1 (Glycine max), 3'ss of exon 7
--------------------------------------------------------------------------attaagt-tagtattcttcaggtaaacttggaggagactaggctttcatgcttaaccatgct---tcaatttttactataataatgaaacattg----ggtgtcacagGTGGAGGTAAATCTTCTCACTGGACAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGTCAGAGTCTCAACCCTGCTGTGGATTTAGGACAG
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gtaagatggtttttttttctatgcatatctcaaatcaaagttgtattttctcaagttaattggtagttacttctcttgaatgttaagtgcttatgtcatattttcagacaagccatgttactgaagtaactaaaccaacttatcttatactgccatgctaaatagtggaaatgatttctcagGTGGAAATAGATCTTCTGAATGGAGAAACCAGATTTTTGCAAACAGATATTATTTACGATTGTGGACAGAGTCTAAACCCTGCTGTGGATTTAGGACAG
upper sequence: Vv18s0041g02410.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G44000.2 (Glycine max), 3'ss of exon 2
----------------------------------------------------------------------------------------attaagttagtattcttcaggtaaacttggaggagactaggctttcatgcttaaccatgcttcaatttttacta--taataatgaaacattgggtgtcacagGTGGAGGTAAATCTTCTCACTGGACAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGTCAGAGTCTCAACCCTGCTGTGGATTTAGGACAG
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gtaggtcgtttttattttttgttccatatgcatatctcaaatcaaaatggtattttctctagttcattaataataacttctcttgaatgttaagtgataatg--tcaaattttctcaaaaaccatgttactgaagtaattgagcctactt-atcttatactgattctaaataatggaatttatttctcagGTGGAAATTGATCTTCTGAATGGAGAAACCAGATTTTTGCAAACAGACATTATTTATGATTGTGGACAGAGTCTAAACCCTGCTGTTGATTTAGGACAG
upper sequence: Vv18s0041g02410.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT2G27150.2 (Arabidopsis thaliana), 3'ss of exon 7
attaagttagtattcttcaggtaaacttggaggagactaggctttcatgcttaaccatgcttcaatttttactataataatgaaacattgggtgtcacagGTGGAGGTAAATCTTCTCACTGGACAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGTCAGAGTCTCAACCCTGCTGTGGATTTAGGACAG
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----------------gcaagtcactatgggaaacactt--ctttctt-------tatatttgaatcaatcaaacaataatgtgattctacttg---cagGTGGAAGTGGACCTTGTGACAGGAAAAACCGAGATTTTAAGATCCGATATTATTTATGACTGTGGAAAGAGTCTTAATCCTGCAGTTGATTTAGGACAG
upper sequence: Vv18s0041g02410.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G20960.2 (Arabidopsis thaliana), 3'ss of exon 7
attaagttagtattcttcaggtaaacttggaggagactaggctttcatgcttaaccatgcttcaatttttactataataatgaaacattgggtgtcac----agGTGGAGGTAAATCTTCTCACTGGACAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGTCAGAGTCTCAACCCTGCTGTGGATTTAGGACAG
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--------------gtaaagctctatatattaaagaatagctcttcttagcttact----tacaaattgtgaaataatt-cacttctttggttgtcatcaatagGTTGAAGTAAACGTTTTGACGGGAGAAACAACGATCCTGCGTACAGATATTATCTATGATTGTGGGAAGAGTCTCAATCCCGCTGTTGATTTAGGACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgcttaaccatgcttcaatttttactataataatgaaacattgggtgtcacagGTGGAGGTAAATCTTCTCACTGGACAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGTCAGAGTCTCAACCCTGCTGTGGATTTAGGACAG
gcttaac putative branch site (score: 3)
ttcaatttttactata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attaagttagtattcttcaggtaaacttggaggagactaggctttcatgcttaaccatgcttcaatttttactataataatgaaacattgggtgtcacagGTGGAGGTAAATCTTCTCACTGGACAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGTCAGAGTCTCAACCCTGCTGTGGATTTAGGACAG
- - - - - - - - - aggtaaa
- - - - - - - - - - - - - - - - - - - - - - tcatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - ccatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaacat