Sequence
atgc intronic sequence ATGC exonic sequence...cctggaatagtgtagattagaaatggctacagatcaattgtctatacttgttccttaagagaactattcatgagacctcattatcttccaaatttgtcagGCAGCAAGTGAGGAATTGAAGAACAGCCGCCTGTTCCTTAAACTCCTTGAAGCTGTTCTCAGGACAGGAAATCGAATGAATGTTGGCACCAACAGGGGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0129g00220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os10g20710.1 (Oryza sativa), 3'ss of exon 3
--cctggaatagtgtagattagaaatggctacagatcaattgtctatacttgttccttaagagaactattcatgagacctcattatcttccaaatttgtcagGCAGCAAGTGAGGAATTGAAGAACAGCCGCCTGTTCCTTAAACTCCTTGAAGCTGTTCTCAGGACAGGAAATCGAATGAATGTTGGCACCAACAGGGGTG
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caagcgtactaacttttaccatatacagaaattattatgaagtccttaaa-gtctctcactggctctttttagtag-cttaacacttctacttgcttttcagGCAGCTTGTGATGATTTAAAAGGCAGTAGATTGTTCTTAAAACTCCTTGAAGCAGTGCTGAGGACAGGGAACAGAATGAATGTTGGCACAAACCGAGGTG
upper sequence: Vv07s0129g00220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g10680.1 (Oryza sativa), 3'ss of exon 3
---cctggaatagtgtagattagaaatggctacagatcaattgtctatacttgttccttaag---agaactattcatgagacctcattatcttccaaatttgtcagGCAGCAAGTGAGGAATTGAAGAACAGCCGCCTGTTCCTTAAACTCCTTGAAGCTGTTCTCAGGACAGGAAATCGAATGAATGTTGGCACCAACAGGGGTG
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gtatgctaagtcttttagttttccat--gttgaatatca--tcaccattttcaactattaaacctacaattagctgacatttcttgtcatgtttttacttt-ttagGCTGCTTGTGAAGATCTTAGAGGCAGTAGGTTGTTCCTAAAACTCCTTGAAGCAGTGCTGAGAACCGGAAACCGGATGAATGTTGGGACAAATAGGGGTG
upper sequence: Vv07s0129g00220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G17460.1 (Glycine max), 3'ss of exon 3
-----cctggaatagtgtagattagaaatggctacagatcaattgtctatacttgttccttaagagaactattcatgag--acctcattatct-tccaaatttgtcagGCAGCAAGTGAGGAATTGAAGAACAGCCGCCTGTTCCTTAAACTCCTTGAAGCTGTTCTCAGGACAGGAAATCGAATGAATGTTGGCACCAACAGGGGTG
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gtatggctggcttatattcatcccttgatatcttca-atgtcttgcttttgattgcattttgttctgcctccttataaactaatcaatcggctgttgatatctgtcagGCAGCAAGTGAGGAATTAAAGAACAGTCGGTTATTCCTCAAACTTCTTGAAGCTGTTCTAAGGACAGGAAACAGAATGAATGTTGGCACAAATCGCGGTG
upper sequence: Vv07s0129g00220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G05220.1 (Glycine max), 3'ss of exon 3
cctggaatagtgtagattagaaatggctacagatcaattgtctatacttgttccttaagagaactattcatgagac---ctcattatcttccaa-atttgtcagGCAGCAAGTGAGGAATTGAAGAACAGCCGCCTGTTCCTTAAACTCCTTGAAGCTGTTCTCAGGACAGGAAATCGAATGAATGTTGGCACCAACAGGGGTG
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------gtcttctagataacttatttcaatgattcaatcccttgttatctttgatttatttatct-cccaggaaactaaccaatcagttatgaatgtctttcagGCTGCAAGTGAGGAATTAAAGAACAGCCGGTTATTCCTCAAACTCCTTGAAGCTGTTCTAAGGACAGGAAACAGAATGAATGTTGGAACTAACCGAGGGG
upper sequence: Vv07s0129g00220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G40080.1 (Glycine max), 3'ss of exon 3
cctggaatagtgtagattagaaatggctacagatcaattgtctatacttgttccttaagagaactattcatgagacctcatta-----tcttccaaatttgtcagGCAGCAAGTGAGGAATTGAAGAACAGCCGCCTGTTCCTTAAACTCCTTGAAGCTGTTCTCAGGACAGGAAATCGAATGAATGTTGGCACCAACAGGGGTG
|| ||| || || | | ||||| | || | || || | | || ||| || | || | | | | | || | |||||| ||||| |||||| | ||||||||||| | ||||| |||||||||||||||||||| ||||||||||| |||||||||||||||| || | || |
---------gtctag-ctaactatttcaatgattcaatcccttgtaatctttgatttatttatctcttccagaaaactaaccaatcagttgtgaatatctttcagGCTGCAAGCGAGGAAATAAAGAACAGCCGGTTATTCCTCAAACTCCTTGAAGCTGTTCTAAGGACAGGAAACAGAATGAATGTTGGCACTAATCGAGGGG
upper sequence: Vv07s0129g00220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G22410.1 (Glycine max), 3'ss of exon 3
-----cctggaatagtgtagattagaaatggctacagatcaattgtctatacttgttccttaagagaactattcatgag--acctcatta-tcttccaaatttgtcagGCAGCAAGTGAGGAATTGAAGAACAGCCGCCTGTTCCTTAAACTCCTTGAAGCTGTTCTCAGGACAGGAAATCGAATGAATGTTGGCACCAACAGGGGTG
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gtatggctggcttatattcattcctttttatcttcaatgtttttgctttcaattgcattttgttctgcctccttaaaaactaatcaatcagttgttgatatctgtcagGTGGCAAGTGAGGAATTAAAGAACAGTCGGTTATTCCTCAAACTTCTTGAAGCTGTTCTAAGGACAGGAAACAGAATGAATGTTGGCACAAATCGCGGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttgttccttaagagaactattcatgagacctcattatcttccaaatttgtcagGCAGCAAGTGAGGAATTGAAGAACAGCCGCCTGTTCCTTAAACTCCTTGAAGCTGTTCTCAGGACAGGAAATCGAATGAATGTTGGCACCAACAGGGGTG
attatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cctggaatagtgtagattagaaatggctacagatcaattgtctatacttgttccttaagagaactattcatgagacctcattatcttccaaatttgtcagGCAGCAAGTGAGGAATTGAAGAACAGCCGCCTGTTCCTTAAACTCCTTGAAGCTGTTCTCAGGACAGGAAATCGAATGAATGTTGGCACCAACAGGGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - -aatggct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - aagagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgaga