Sequence
atgc intronic sequence ATGC exonic sequence...agtgttctattaacaaaaaagctccttgctcttatatgagtcctttatgttctatgctaacattgcttgtgcttttgattgttgacctgccaattcacagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGATCTGGATGAGCTTTTCAAAGTTGCTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: LOC_Os03g48300.3 (Oryza sativa), 3'ss of exon 23
agtgttctattaacaaaaaagctccttgctcttatatgagtcctttatgttc---tatg-ctaacattgcttgtgct-tttgattgttgacctgccaattcacagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGATCTGGATGAGCTTTTCAAAGTTGCTCAG---------------------------------
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--cattattcttccttatatatctaatgtacttatttgaattatgaaagatcatttacatctgtcatgaaccgcacaatctaagtgctgaattaca---ttgcagATATGACCTCCTGCATAATGCACATCTTAACCTTGAAGGTTTGGAAGAGCTTTTCAAAGTTGCTCAAGTAAGGAACCTTAACGTTCTGTACTTCCATTTG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: LOC_Os03g48300.1 (Oryza sativa), 3'ss of exon 23
agtgttctattaacaaaaaagctccttgctcttatatgagtcctttatgttc---tatg-ctaacattgcttgtgct-tttgattgttgacctgccaattcacagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGATCTGGATGAGCTTTTCAAAGTTGCTCAG
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--cattattcttccttatatatctaatgtacttatttgaattatgaaagatcatttacatctgtcatgaaccgcacaatctaagtgctgaattaca---ttgcagATATGACCTCCTGCATAATGCACATCTTAACCTTGAAGGTTTGGAAGAGCTTTTCAAAGTTGCTCAA
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 21
agtgttctattaacaaaaaagctccttgctcttatatgagtcctttatgttctatgctaa---cattgcttgtgcttttgattgttgacctgccaat---------tcacagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGATCTGGATGAGCTTTTCAAAGTTGCTCAG
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----------caacaaccaagc--cttgtcccactagatgccctggacgtttcatttaaactacgtgatttttattcttttctgacagtaagttaatgtttacttattacagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGGACTTGATGAGCTTTTCAAAGTTGCTCAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 37
agtgttctattaacaaaaaagctccttgctcttatatgagtcctttatgttctatgctaacattgc---ttgtgcttttgattgttgacct----gccaattca---cagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGATCTGGATGAGCTTTTCAAAGTTGCTCAG
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--------ttcaacaaccaagc--cttgtcccactagatgccctggaggtttcatttaaactatgtgatttttattcttttctgacgaatttaatgtttacttattgcagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGGACTTCATGAGCTTTTCAAAGTTGCTCAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 21
-agtgttctattaacaaaaaagctccttgctcttatatgagtccttta-tgttctatgctaacattgcttgtgcttttgattgttgacctgccaattcacagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGATCTGGATGAGCTTTTCAAAGTTGCTCAG
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acttagtcaatatgaagagaaaatgggcagtttcatttaaattatgtagtttcttttattcctttcgtttgagatgttaacattta--ctttcacattacagATATGATCTCTTGCATAATGCTCATCTTAATCTAGAAGGATTGGATGAGCTTTTCAAGGTTGCTCAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 23
-agtgttctattaacaaaaaagctccttgctcttatatgagtccttta-tgttctatgctaacattgcttgtgcttttgattgttgacctgccaattcacagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGATCTGGATGAGCTTTTCAAAGTTGCTCAG
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acttaatcaatatgaagaaaaaattggcagtttcatttaaattatgtagctttttttattccttttgtttgagatgttaacattta--ctttcacattacagATATGATCTCTTGCATAATGCCCATCTTAATCTAGAAGGATTGGATGAGCTTTTCAAGGTTGCTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgttctatgctaacattgcttgtgcttttgattgttgacctgccaattcacagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGATCTGGATGAGCTTTTCAAAGTTGCTCAG
ttttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtgttctattaacaaaaaagctccttgctcttatatgagtcctttatgttctatgctaacattgcttgtgcttttgattgttgacctgccaattcacagATATGATCTCTTGCACAATGCACATCTTAATCTAGAAGATCTGGATGAGCTTTTCAAAGTTGCTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - aaaaaag
- - - - - - - - - - - - cttgctc
- - - - - - - - - - - - - - - - - - - - - - - - - -ctatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gacctgc