Sequence
atgc intronic sequence ATGC exonic sequence...agttaacaaaaaataaaaattaaaaaaggatgaaaaaaagaaactatttgttattatggatttttggtataggattcatttaaagtgttttacttaacagGCATGGCATGGAAGGCAAAGGCAACGTGCAACAAGGGCGGAGAAACTAAGGTTCCAAGCGTTGAAAGCTGATGATCAAGAAGCATACATGAGAATGGTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G28120.1 (Glycine max), 3'ss of exon 5
agttaacaaaaaataaaaattaaaaaaggatgaaaaaaagaaact--atttgtta-ttatggatttttggtatagg--attcatttaaagtgttttacttaacagGCATGGCATGGAAGGCAAAGGCAACGTGCAACAAGGGCGGAGAAACTAAGGTTCCAAGCGTTGAAAGCTGATGATCAAGAAGCATACATGAGAATGGTAA
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-gtgattttagattaattttttgctcttcgttgtggattgaaatataacttatcagttaccaatgattagtgtggcttatttttctcaaatactttt----gcagGCATGGCATGGAAGGCAAAGGCAACGGGCAACTCGGGCAGAGAAATTGAGATTCCAAGCCTTGAAGGCTGATGATCAAGAAGCCTACATGAGAATGGTGA
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G39630.1 (Glycine max), 3'ss of exon 3
agttaacaaaaaataaaaattaaaaaaggatgaaaaa--aagaaactatttgtta-ttatggatttttggtataggattcatttaaagtgttttactta-acagGCATGGCATGGAAGGCAAAGGCAACGTGCAACAAGGGCGGAGAAACTAAGGTTCCAAGCGTTGAAAGCTGATGATCAAGAAGCATACATGAGAATGGTAA
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--tgattttagattaattttttgctcttcattgtaggttgaaatataacttatcagttaccaataattaatatgg--cttatttattctcaaatacttttgcagGCATGGCATGGAAGGCAAAGGCAACGGGCAACTCGGGCAGAGAAATTGAGATTCCAAGCATTGAAGGCTGATGATCAAGAAGCCTACATGAGAATGGTGA
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G00640.1 (Glycine max), 3'ss of exon 6
agttaacaaaaaataaaaattaaaaaaggatgaaaaaaagaaactatttgttattatggatttttggtataggattcatttaaagtgttttacttaaca-----gGCATGGCATGGAAGGCAAAGGCAACGTGCAACAAGGGCGGAGAAACTAAGGTTCCAAGCGTTGAAAGCTGATGATCAAGAAGCATACATGAGAATGGTAA
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----gatttaagatttcattttgctcgtttttatgggttgagag-atcacttatcattgatttaatatggattatcaattctggttctcataaataatattgaagGCATGGCATGGAAGGCAAAGGCAACGTGCAACACGGGCAGAGAAATTGAGATTCCAAGCCTTAAAGGCCGATGATCAGGAAGCTTACATGAGAATGGTAA
upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G19310.1 (Arabidopsis thaliana), 3'ss of exon 5
-----------------------------------agttaacaaaaaataaaaattaaaaaaggatgaaaaaaag-aaactatttgttattatggatttttgg-----tataggattcatttaaagtgttttacttaacagGCATGGCATGGAAGGCAAAGGCAACGTGCAACAAGGGCGGAGAAACTAAGGTTCCAAGCGTTGAAAGCTGATGATCAAGAAGCATACATGAGAATGGTAA
| || | || || | | | || | | | | | || | || || | || | | ||| | | || |||||||| |||||||||| ||||||||||||||| || | || || ||||||||| || || | ||| ||||||||||||| | |||||||| | | | ||
gtatgatatctctgcccttatgtttttcattgctcatttttcttgtcattgaacccatgatataattgagttatgtatatccttaaacgtcataaatatacaaagtcttacaaacagaaattattgccatctatctaacagGCCTGGCATGGAAAGCAAAGGCAACGTGCCACCCGAGCTGAAAAACTAAGGATCATGGCCCTTAAATCTGATGATCAAGAGGAATACATGAAACTAGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgttattatggatttttggtataggattcatttaaagtgttttacttaacagGCATGGCATGGAAGGCAAAGGCAACGTGCAACAAGGGCGGAGAAACTAAGGTTCCAAGCGTTGAAAGCTGATGATCAAGAAGCATACATGAGAATGGTAA
ttttactt CT-rich tract
ttattatggattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agttaacaaaaaataaaaattaaaaaaggatgaaaaaaagaaactatttgttattatggatttttggtataggattcatttaaagtgttttacttaacagGCATGGCATGGAAGGCAAAGGCAACGTGCAACAAGGGCGGAGAAACTAAGGTTCCAAGCGTTGAAAGCTGATGATCAAGAAGCATACATGAGAATGGTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - -aaaaaat
- - - - - - - - - - taaaaaa
- - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - -gaaacta