Sequence
atgc intronic sequence ATGC exonic sequence...aaagcaatccaattgcaattttgaaaacattgattagatattgaaatttaatcctgaaatgccccctgctgattttatatttttcatcctgggcagccagGTTGGTTCTTGCTTTGGGAGCTGAAGCCAAACTGGATGTTGTCCCAGGAGCTGCAGAATTTGCATTGCCATTCTCCACCCTGGAGGATGCATGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g02690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os06g11140.1 (Oryza sativa), 3'ss of exon 5
aaagcaatccaattgcaattttgaaaacattgattagatattgaaatttaatcctgaaatgccccctgctgattttatatttttcatcctgggcagccagGTTGGTTCTTGCTTTGGGAGCTGAAGCCAAACTGGATGTTGTCCCAGGAGCTGCAGAATTTGCATTGCCATTCTCCACCCTGGAGGATGCATGT
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acaataacttttcaggatatcttgcatttgtaattttatggcgtccttagaagttttgagtgatataactgatgatataccttttggaatgggcagccagGCTCGTTCTAGCTTTAGGGGCTGAAGCTAAAATTGATGTTGTCCCAGGATCTGCTGAATATGCAATTCCTTTCACGACTTTGGATGATGCTTTG
upper sequence: Vv07s0031g02690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G00520.1 (Glycine max), 3'ss of exon 4
-----aaagcaatccaattgcaattttgaaaacattgattagatattgaaatttaatcctgaaatgccccctgctgattttatattt-ttcatcctgggcagccagGTTGGTTCTTGCTTTGGGAGCTGAAGCCAAACTGGATGTTGTCCCAGGAGCTGCAGAATTTGCATTGCCATTCTCCACCCTGGAGGATGCATGT
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tgttgaatgcaatagaaatacatttgt---agtgttg--tggtaaatagaattgcatcat-atctgttggttttaactttttcatttcttcacactggacagccagGCTGGTTCTTGCGTTGGGAGCTGAATCTAAACTGGATGTTGTACCAGGGGCAGTAGAATTTGCAATTCCTTTCTCAATGCTAGAAGATGCACCT
upper sequence: Vv07s0031g02690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G32900.1 (Glycine max), 3'ss of exon 5
-----aaagcaatccaattgcaattttgaaaacattgattagatattgaaatttaatcctgaaatgccccctgctgattttatatttttcatcctgggcagccagGTTGGTTCTTGCTTTGGGAGCTGAAGCCAAACTGGATGTTGTCCCAGGAGCTGCAGAATTTGCATTGCCATTCTCCACCCTGGAGGATGCATGT
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tgttaaatgaaatagaaatacatttgtagtgttatgg--taaata---gaattgcaccatatctgttgatttgaactttttcttttcttcacactggacagccagGCTGGTTCTTGCGTTGGGAGCTGAAGCTAAACTGGATGTTGTACCAGGGGCAATAGAATTTGCAATTCCTTTCTCAACGCTAGAAGATGCACGT
upper sequence: Vv07s0031g02690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G08740.1 (Arabidopsis thaliana), 3'ss of exon 5
-------------------------------aaagcaatcca----attgcaatt--ttgaaaacattgat--tagatattgaaatttaatcctgaaatgccccctg----ctgattttatatttttcatcctgggcagccagGTTGGTTCTTGCTTTGGGAGCTGAAGCCAAACTGGATGTTGTCCCAGGAGCTGCAGAATTTGCATTGCCATTCTCCACCCTGGAGGATGCATGT
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gtactatgtttacataagccccataaaactcaatgcaatctatctcatttctcttgtctacagactctaatagtgtgtggtacaataaaaccatacatttaactcagagatttggactcattttctttcttttctacagccagGTTGGTTCTTGCTCTTGGCGCTGAATCTAAACTCGATGTTGTTCCCGGTGCAATGGAGTTGGCTTTCCCATTCTACACTCTTGAAGATGCCATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttaatcctgaaatgccccctgctgattttatatttttcatcctgggcagccagGTTGGTTCTTGCTTTGGGAGCTGAAGCCAAACTGGATGTTGTCCCAGGAGCTGCAGAATTTGCATTGCCATTCTCCACCCTGGAGGATGCATGT
tgctgat putative branch site (score: 3)
tgattttatatttttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaagcaatccaattgcaattttgaaaacattgattagatattgaaatttaatcctgaaatgccccctgctgattttatatttttcatcctgggcagccagGTTGGTTCTTGCTTTGGGAGCTGAAGCCAAACTGGATGTTGTCCCAGGAGCTGCAGAATTTGCATTGCCATTCTCCACCCTGGAGGATGCATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - caatcca
- - - - - - - - - - - gaaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - -tcctgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccccctg