Sequence
atgc intronic sequence ATGC exonic sequence...attcttctgtcctactgtatccagctgtgatatttagatattgctcttatgctatattttcaaatggccaattttaacatgaattcattcacaacctcagGGTTTCTTTTGCTGATCCTGTTGCTGTAAGGCATGCTTTGGAAATTCTCTCCGAATTAGCTACAAAAGACCCTTATGCAGTTGCAATGGCCTTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G03020.1 (Glycine max), 3'ss of exon 8
------------------------------------------------------------------------------attcttctgtccta---ctgtatccagctgtg-atatttagatatt-gctcttatgctatat-----tttcaaatggccaattttaacat---gaattcattcacaacctcagGGTTTCTTTTGCTGATCCTGTTGCTGTAAGGCATGCTTTGGAAATTCTCTCCGAATTAGCTACAAAAGACCCTTATGCAGTTGCAATGGCCTTAG
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gtaagttactctgtgaaccaaaacttagaggaacaaatagttcatggcctctctttgagcaactttttacttcttgctttttgtttattttggagctggcattaactttgtataatttattattagcttttgcattcttcccttgtctctggtctatagttctcaaatctcaaaactagagttgactgcagGATTTCATTTGCTGATCCAGTTGCTGTGAGGCATGCACTGGAAATTGTTTCTGAGATAGCTACAAGGGATCCTTATGCTGTTGCAATGGCCTTAG
upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA05G36530.1 (Glycine max), 3'ss of exon 8
------------------------------------------------------------------------------attcttctgtccta----ctgtatccagctgtgatatttagatatt-gctcttatgct-----atattttcaaatggccaattttaacat---gaattcattcacaacctcagGGTTTCTTTTGCTGATCCTGTTGCTGTAAGGCATGCTTTGGAAATTCTCTCCGAATTAGCTACAAAAGACCCTTATGCAGTTGCAATGGCCTTAG
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gtaagttactcctagaaccaaaacttagaggaacaaatagttcatggcgtctctttgtgcaacttttttcttcttgcttttcgtttattttggagctggcattaagtttgcataatttattattagcttttgcattcttccattgtttctggtctatagttctcaaatctcaaaactagagttgactgcagGATTTCATTTGCTGATCCAGTTGCTGTGAGGCATGCACTGGAAATTGTTTCTGAGATAGCTACAATGGATCCTTATGCTGTTGCAATGGCCTTAG
upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT2G07360.1 (Arabidopsis thaliana), 3'ss of exon 8
-----------------------------------------------------attcttctgtcctactgta---tccagctgtgatatttagatattgctcttatgctatattttca----aatggccaatt-ttaacatgaattcattcaca-acctcagGGTTTCTTTTGCTGATCCTGTTGCTGTAAGGCATGCTTTGGAAATTCTCTCCGAATTAGCTACAAAAGACCCTTATGCAGTTGCAATGGCCTTAG
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gtaagactttttttttggttctttctactatctttttaagtatagagtattggatttaagtatagtgatgtaggtttcacaagagcaattgaatttttggtctattcctaattatgcagtatattggacagttattctcgtattcacacttttatgttgcagTGTTTTCTTTGCTGATCCTGTTGCGGTGAGGCATTCACTGGAAATTCTATCTGAGTTAGCCACAAGAGACCCCTATACAGTAGCAATGACATTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttatgctatattttcaaatggccaattttaacatgaattcattcacaacctcagGGTTTCTTTTGCTGATCCTGTTGCTGTAAGGCATGCTTTGGAAATTCTCTCCGAATTAGCTACAAAAGACCCTTATGCAGTTGCAATGGCCTTAG
ttttaac putative branch site (score: 2)
aattttaacatgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attcttctgtcctactgtatccagctgtgatatttagatattgctcttatgctatattttcaaatggccaattttaacatgaattcattcacaacctcagGGTTTCTTTTGCTGATCCTGTTGCTGTAAGGCATGCTTTGGAAATTCTCTCCGAATTAGCTACAAAAGACCCTTATGCAGTTGCAATGGCCTTAG
- -cttctgt
- - - - - cctactg
- - - - - - - - - - -cagctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatggcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgaat