Sequence
atgc intronic sequence ATGC exonic sequencegtaagatttttcatggatagttttagttttgatagaagcaattctattgtcctagtcttggagttaaagctggtggaccttgatgacagGTAAGAAGGGAAAAGATCAGTGAAAGGATGAAGTTTCTTCAAGACCTGGTACCTGGTTGCAGCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0010g00740.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os09g29830.2 (Oryza sativa), 3'ss of exon 2
gtaagatttttcatggatagttttagttttgatag-aagcaattctattgtcct-agtc--ttggagttaaagctggtggaccttgatgacagGTAAGAAGGGAAAAGATCAGTGAAAGGATGAAGTTTCTTCAAGACCTGGTACCTGGTTGCAGCAAG
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gtacatatttcagtg-----ttctagtatggacagtatgctttgcaattggcatcagtacgttgaaactgagtattttacgtttcgtgtgcagTTGAGAAGGGAGAAGATCAGTGAGAGGATGAAACTTCTTCAGGACCTAGTTCCTGGCTGCAGCAAG
upper sequence: Vv01s0010g00740.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G13860.1 (Glycine max), 3'ss of exon 4
gtaagatttttcatggatagttttagttttgatagaagcaattctattgtcctagtcttggagttaaagctggtggaccttgatgacagGTAAGAAGGGAAAAGATCAGTGAAAGGATGAAGTTTCTTCAAGACCTGGTACCTGGTTGCAGCAAG
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gtaagattttgtgagaac----ttatctgtgatgaagatga----agttttttggatgaagaatttcaaat--tggattttcactgcagGTGAGGAGGGAAAAGATAAGTGAGAGGATGAAGTTTCTTCAAGACCTTGTACCTGGATGCAGCAAG
upper sequence: Vv01s0010g00740.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G13860.3 (Glycine max), 3'ss of exon 4
gtaagatttttcatggatagttttagttttgatagaagcaattctattgtcctagtcttggagttaaagctggtggaccttgatgacagGTAAGAAGGGAAAAGATCAGTGAAAGGATGAAGTTTCTTCAAGACCTGGTACCTGGTTGCAGCAAG----------------------------------
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gtaagattttgtgagaac----ttatctgtgatgaagatga----agttttttggatgaagaatttcaaat--tggattttcactgcagGTGAGGAGGGAAAAGATAAGTGAGAGGATGAAGTTTCTTCAAGACCTTGTACCTGGATGCAGCAAGGTGGCTTCTAAGTTTGAAACTAGAAAATTTACTA
upper sequence: Vv01s0010g00740.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G09400.1 (Glycine max), 3'ss of exon 3
gtaagatttttcatggatagttttagttttgatagaagcaattctattgtcctagtcttggagttaaagctggtggaccttgatgacagGTAAGAAGGGAAAAGATCAGTGAAAGGATGAAGTTTCTTCAAGACCTGGTACCTGGTTGCAGCAAG
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gtaagattttgtgagaac----ttatctgtaatgaaaatgaagtttttgtatgaa----gaattttaaattag---attttcactgcagGTGAGGAGGGAAAAGATAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAG
upper sequence: Vv01s0010g00740.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G68920.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaagatttttcatgg-atagttttagttttgatagaagcaattctat-tgtcctagtcttggagttaaagctggtggacct-tgatgacagGTAAGAAGGGAAAAGATCAGTGAAAGGATGAAGTTTCTTCAAGACCTGGTACCTGGTTGCAGCAAG
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gtacaatttctaaaactatcttggaagtttaagtcgaatagaagctatctcttcttgtatt----tttcatctaattactttgcgatgatagGTTAGGAGAGAAAAAATTAGTGAAAGGATGAAGTTTCTTCAAGATCTAGTACCGGGTTGCAACAAG
upper sequence: Vv01s0010g00740.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G26260.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaagatttttcatggatagttttagttttgatagaa-gcaattctattgtcctagtcttggagttaaagctggtggaccttg--atgacagGTAAGAAGGGAAAAGATCAGTGAAAGGATGAAGTTTCTTCAAGACCTGGTACCTGGTTGCAGCAAG
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gtaggaa----caatatttttttgaagttgaatagaaagcaaatttcttttgttg---ttgtatttgaatttggttaaacttgttatcgtagGTAAGAAGAGAAAAAATCAGTGAAAGGATGAAGTTCTTGCAAGATCTTGTGCCAGGTTGCGACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaagcaattctattgtcctagtcttggagttaaagctggtggaccttgatgacagGTAAGAAGGGAAAAGATCAGTGAAAGGATGAAGTTTCTTCAAGACCTGGTACCTGGTTGCAGCAAG
ccttgat putative branch site (score: 5)
aattctatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagatttttcatggatagttttagttttgatagaagcaattctattgtcctagtcttggagttaaagctggtggaccttgatgacagGTAAGAAGGGAAAAGATCAGTGAAAGGATGAAGTTTCTTCAAGACCTGGTACCTGGTTGCAGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG