Sequence
atgc intronic sequence ATGC exonic sequence...gagtggatttttttgtctctcttttcatatttagtttcccttgaattttggttatgttttatcattctctgtttattttcttactttaacccatttatagATTAGACATGGGGAAGCTGTTGGGATTATTGGGCCTTCTGGCACTGGGAAATCAACAGTTCTGAAGATTATTGCGGGACTTCTTGCTCCAGACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g00290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM5G868168_T01 (Zea mays), 3'ss of exon 3
gagtggatttttttgtctctcttttcatatttagtttcccttgaattt-tggttatgttttatcat--tctctgtttattttcttactttaacccatttatagATTAGACATGGGGAAGCTGTTGGGATTATTGGGCCTTCTGGCACTGGGAAATCAACAGTTCTGAAGATTATTGCGGGACTTCTTGCTCCAGACAAG
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-actacgcattctgttcactgttat-attttgatgttttcatgactcagtaggtttggtttgttgtagttatgattcaaaataatgttata-cttttgtgtagATTAGACATGGTGAAGCAGTTGGGATAATTGGACCTTCAGGGACGGGAAAATCAACTATATTGAAGGTTATGGCTGGGCTGCTTGCTCCGGACAAG
upper sequence: Vv04s0023g00290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM5G868168_T03 (Zea mays), 3'ss of exon 3
gagtggatttttttgtctctcttttcatatttagtttcccttgaattt-tggttatgttttatcat--tctctgtttattttcttactttaacccatttatagATTAGACATGGGGAAGCTGTTGGGATTATTGGGCCTTCTGGCACTGGGAAATCAACAGTTCTGAAGATTATTGCGGGACTTCTTGCTCCAGACAAG
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-------gcattctgttcactgttatattttgatgttttcatgactcagtaggtttggtttgttgtagttatgattcaaaataatgttata-cttttgtgtagattagACATGGTGAAGCAGTTGGGATAATTGGACCTTCAGGGACGGGAAAATCAACTATATTGAAGGTTATGGCTGGGCTGCTTGCTCCGGACAAG
upper sequence: Vv04s0023g00290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G38730.1 (Glycine max), 3'ss of exon 2
gagtggatttttttgtctctcttttcatatttagtttcccttgaattttggttatgttttatcattctctgtttattttcttactttaacccattta-tagATTAGACATGGGGAAGCTGTTGGGATTATTGGGCCTTCTGGCACTGGGAAATCAACAGTTCTGAAGATTATTGCGGGACTTCTTGCTCCAGACAAG
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-ccattattttgataaattcatttaggcaggtcttgctgattcagcaattgttaaatctttttgctgtttttttttttcttttttctgacataatgaatagATTAGACATGGTGAAGCTGTTGGAATAATTGGTCCTTCTGGGACCGGCAAATCTACAGTTTTGAAGATTATTGCTGGACTTCTTGCTCCGGACAAA
upper sequence: Vv04s0023g00290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G47600.1 (Glycine max), 3'ss of exon 2
--gagtg-gatttttttgtctctcttttcatatttagtttcccttgaattttggttatgttttatcattctctgtttattttcttactttaacccatttatagATTAGACATGGGGAAGCTGTTGGGATTATTGGGCCTTCTGGCACTGGGAAATCAACAGTTCTGAAGATTATTGCGGGACTTCTTGCTCCAGACAAG
| || | | |||| | | | | | ||| || | || | || | | | | || || | | || | || |||||| | ||||| ||||||||||| || ||||| || ||||| ||||| ||||| |||||| ||||||||||||| |||||||||||||| |||||
ttaaatgtaaactagttgtaagtggggggaggtcttgcagattcagaactt--gctaaatctttttgctgttttttctttcttctttttgacataatgaataGATCAAGCATGGTGAAGCTGTTGGAATAATTGGTCCCTCTGGGACTGGCAAATCTACAGTTTTGAAGATTATTGCAGGACTTCTTGCTCCGGACAA-
upper sequence: Vv04s0023g00290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G65410.1 (Arabidopsis thaliana), 3'ss of exon 2
gagtggatttttttgtctctcttttcatatttagtttcccttgaattttggtta-tgttttatcattctctgtttattttct-tactttaacccatt--------tatagATTAGACATGGGGAAGCTGTTGGGATTATTGGGCCTTCTGGCACTGGGAAATCAACAGTTCTGAAGATTATTGCGGGACTTCTTGCTCCAGACAAG
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----gtattttgttgtgtttacagtgatgaaagaaggcttatagattttgaaaggcacacaaagacaccacacaaagacaccacattctaaccaatttttaagtatgcagATTAGACATGGTGAAGCTGTTGGGGTGATTGGTCCTTCTGGAACTGGAAAATCAACAATTTTAAAGATTATGGCTGGTCTTCTTGCTCCAGACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttggttatgttttatcattctctgtttattttcttactttaacccatttatagATTAGACATGGGGAAGCTGTTGGGATTATTGGGCCTTCTGGCACTGGGAAATCAACAGTTCTGAAGATTATTGCGGGACTTCTTGCTCCAGACAAG
cccattt CT-rich tract
tttattttcttacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagtggatttttttgtctctcttttcatatttagtttcccttgaattttggttatgttttatcattctctgtttattttcttactttaacccatttatagATTAGACATGGGGAAGCTGTTGGGATTATTGGGCCTTCTGGCACTGGGAAATCAACAGTTCTGAAGATTATTGCGGGACTTCTTGCTCCAGACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - -tctctct
- - - - - - - - - - - - - - - - - - -cccttga