Sequence
atgc intronic sequence ATGC exonic sequence...gggaagtagaccataactaggtaaaaactataatcagggagatagtagcgtgggaatagaataaatttcaatctttgatctggtttttgatttggtgcagGTTTTTGTACGAGATTTTGTACCTAGTGCTCTGGCTTTTCTAATGAATGGTGAGCCTGAGATAGTTAAAAATTTCCTTTTGAAGACTCTGCATCTTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0072g01040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os11g07440.3 (Oryza sativa), 3'ss of exon 2
gggaagtagaccataactaggtaaaaactataatcagggagatagtagcgtgggaatagaataaatttcaa-tctttgatctggtttttgatttggtg-cagGTTTTTGTACGAGATTTTGTACCTAGTGCTCTGGCTTTTCTAATGAATGGTGAGCCTGAGATAGTTAAAAATTTCCTTTTGAAGACTCTGCATCTTCAAG
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--cttctgcatgcttgttttttcaatgtttttttccccctgaatcaaatgaatagttcagttatgcttcacctctttcctgatgttatccttacaatggcagGTTTTTGTGCGAGATTTTTTTCCAAGTGCATTGGCTTTTCTAATGAATAATGAGACTGATATAGTGAAAAACTTCCTCTTGAAAACACTCCACCTGCAAA
upper sequence: Vv18s0072g01040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G31730.1 (Glycine max), 3'ss of exon 2
---gggaagtaga-ccataactaggtaaaaactataatcagggagatagtagcgtgggaatagaataaatttcaatctttgatctggtttttgatttggtgcagGTTTTTGTACGAGATTTTGTACCTAGTGCTCTGGCTTTTCTAATGAATGGTGAGCCTGAGATAGTTAAAAATTTCCTTTTGAAGACTCTGCATCTTCAAG
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ttgtgataatggatcccccgcaaacctaaaagcaccatgaactaaatctttttactgttgtgggg-gtcttctaagaaagagtttgatatttatttta---tagGTTTTTGTTCGAGATTTTGTGCCCAGTGCTCTAGCCTTTTTGATGAATGGTGAACCAGAGATAGTCAGGAACTTCTTGTTGAAGACACTGCATCTTCAGG
upper sequence: Vv18s0072g01040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G35890.2 (Glycine max), 3'ss of exon 2
gggaagtagaccataactaggtaaaaactataatcagggagatagtagcgtgggaa---tagaataaatttcaatctttgatctggtttttgatttggtgcagGTTTTTGTACGAGATTTTGTACCTAGTGCTCTGGCTTTTCTAATGAATGGTGAGCCTGAGATAGTTAAAAATTTCCTTTTGAAGACTCTGCATCTTCAAG
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---gagaaactcaggttttgtgttaatggagcccccggcaaaccgtcgtgggggtcttctaagaaagagtatgatatttattatttaaataatctttttctagGTTTTTGTTCGTGATTTTGTGCCCAGTGCTCTAGCCTTTTTGATGAATGGTGAACCAGAGATAGTCAGGAACTTCTTGTTGAAGACACTGCATCTTCAGG
upper sequence: Vv18s0072g01040.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G72000.1 (Arabidopsis thaliana), 3'ss of exon 1
------------------------------------------------------------------------------gggaagtagaccataactag-gtaaa---------aactataa---tcagggagatagtagcgtgggaatagaataa---atttcaatctttgatctggtttttgatttggtgcagGTTTTTGTACGAGATTTTGTACCTAGTGCTCTGGCTTTTCTAATGAATGGTGAGCCTGAGATAGTTAAAAATTTCCTTTTGAAGACTCTGCATCTTCAAG
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gtatggttgtgttttgtttctttctagtttgtttttgctgttttggttttggtgaatttgatgaactcttaagacataaaagagaagaacaaaattagagtgaatcgcacgtcaactagaacatttaagcaaattacaaactatgattgttctgcctcattacaatttttcttgtctattgtaactt--ttaagGTGTTCGTACGTGATTTTGTACCGAGTGCTCTAGCATTTCTGATGAATGGAGAGCCTGAAATTGTGAAGAACTTTCTCCTGAAGACACTTCATATTCAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagcgtgggaatagaataaatttcaatctttgatctggtttttgatttggtgcagGTTTTTGTACGAGATTTTGTACCTAGTGCTCTGGCTTTTCTAATGAATGGTGAGCCTGAGATAGTTAAAAATTTCCTTTTGAAGACTCTGCATCTTCAAG
ttttgat putative branch site (score: 4)
aatagaataaatttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gggaagtagaccataactaggtaaaaactataatcagggagatagtagcgtgggaatagaataaatttcaatctttgatctggtttttgatttggtgcagGTTTTTGTACGAGATTTTGTACCTAGTGCTCTGGCTTTTCTAATGAATGGTGAGCCTGAGATAGTTAAAAATTTCCTTTTGAAGACTCTGCATCTTCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - -accataa
- - - - - - - - - - gtaaaaa
- - - - - - - - - - - - - - - - - - - - - - - -gcgtggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaataaa