Sequence
atgc intronic sequence ATGC exonic sequence...tattttggccttaagtttctacatgtatattaaatatttcgaatattgactaaaatttaggtgagcttccatctaatgttttatgtacaacatttttcagATAGCAACACTTGAACCGATGATTACAGGACTGCAAGAAGCATTGCCAAAATCTATTGGACTGCTTCCTTTTGATGGAGGTGTAACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0043g00740.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: LOC_Os03g05020.1 (Oryza sativa), 3'ss of exon 21
tattttggccttaagtttctacatgtatattaaatatttcgaatattgactaaaatttaggtgagcttccatc--taatgttt---tatgtacaacat-ttttcagATAGCAACACTTGAACCGATGATTACAGGACTGCAAGAAGCATTGCCAAAATCTATTGGACTGCTTCCTTTTGATGGAGGTGTAACAG
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-----tggctatgaatctagagaagcatgtccag-attcatagtgaaaaatgaagtctttttgggacgaaggtagtagtacctaagtatctgctcttccttttcagATAACAGCTATGGTGCCAAAAATAACTGCATTGCAAGAAGCACTGCCCAAATCTATTGGACTTCTTTCATTTGATGGTGGTATAGCAG
upper sequence: Vv04s0043g00740.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GRMZM2G113174_T01 (Zea mays), 3'ss of exon 4
------------------------------------------------------------------------tattttggccttaagtttctacatgtatattaaatatttcgaatattgactaaa-atttaggtgagcttccatctaatgttttatgtacaacatttttcagATAGCAACACTTGAACCGATGATTACAGGACTGCAAGAAGCATTGCCAAAATCTATTGGACTGCTTCCTTTTGATGGAGGTGTAACAG
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gtgagtagtaaggaacattgtattgtgttatacaccagaaggcacaaaattcaaacaacacaattcagtggatgaacaagcttgacatcttttcatccgacagaaaagttggagacacctagaaaacaatcaaattactatgaagctaatgttcttttcttc---ctttttagATTACAGGTTTGCTACCGAAAATAAATGCACTGCAAGAAGCATTACCAAAATCTATTGGGCTTCTTTCATTTGATGGTGGTATAGCAG
upper sequence: Vv04s0043g00740.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GLYMA03G41350.1 (Glycine max), 3'ss of exon 25
tattttggccttaagtttcta-catgtatat-taaatattt-cgaatattgactaaaatttaggtgagcttccatctaatgttttatgtacaacatttttcagATAGCAACACTTGAACCGATGATTACAGGACTGCAAGAAGCATTGCCAAAATCTATTGGACTGCTTCCTTTTGATGGAGGTGTAACAG
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catacatactggatgcttctagtttgcatatgtctatattcattgatatta--taaaatttggacgtggctc-actaactatgtaaatgggtgctattgctagATTACTTTGCTTGAACCAATGATTACAGGATTACAAGACTCTTTGCCAAAATCAATTGGGCTTCTTCCTTTTGATGGAGGTGTGACAG
upper sequence: Vv04s0043g00740.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GLYMA19G43970.1 (Glycine max), 3'ss of exon 24
----tattttg---gccttaagtttctacatgtatattaaatatttcgaatattgactaaaatttaggtgagcttccatctaatgttttatgtacaacatttttcagATAGCAACACTTGAACCGATGATTACAGGACTGCAAGAAGCATTGCCAAAATCTATTGGACTGCTTCCTTTTGATGGAGGTGTAACAG
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catacatactggatgcttctagtttgcatatgtctat-atttattgctattat-----aaaatttagacatggctcactaacaacgtaaatgggtgctattcct-agATTACTTTGCTTGAACCAATGATTACAGGATTACAAGATTCTTTGCCAAAATCAATTGGGCTTCTTCCTTTCGATGGAGGTGTGACAG
upper sequence: Vv04s0043g00740.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: AT5G18410.1 (Arabidopsis thaliana), 3'ss of exon 25
-tattttggccttaagtttctacatgtatattaaatatttcgaatattgactaaaatttaggtgagcttccatctaatgttttatgtacaacatttttcagATAGCAACACTTGAACCGATGATTACAGGACTGCAAGAAGCATTGCCAAAATCTATTGGACTGCTTCCTTTTGATGGAGGTGTAACAG
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gtatatttgcactt--tttgtac-catttattccttttgtgaagtactaattata--caaaggaaccagctaaaatagctcttttgtcttaaaactttcagATAACAACACTTGAGCCAATGATCTCTGGATTGCAAGAAGCATTGCCCAAGTCCATTGGATTGCTTTCTTTTGATGGTGGTGTTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgactaaaatttaggtgagcttccatctaatgttttatgtacaacatttttcagATAGCAACACTTGAACCGATGATTACAGGACTGCAAGAAGCATTGCCAAAATCTATTGGACTGCTTCCTTTTGATGGAGGTGTAACAG
catttttc CT-rich tract
atctaatgttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattttggccttaagtttctacatgtatattaaatatttcgaatattgactaaaatttaggtgagcttccatctaatgttttatgtacaacatttttcagATAGCAACACTTGAACCGATGATTACAGGACTGCAAGAAGCATTGCCAAAATCTATTGGACTGCTTCCTTTTGATGGAGGTGTAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - ctacatg
- - - - - - - - - - - - - - - - - - - - - - - - actaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgtac