Sequence
atgc intronic sequence ATGC exonic sequence...ttcgaccttaacattttgcaaaagtttctattgtatctttgcctcaacaagctctctctctctgtgtctctctctcaatcttttcttatgaaatttccagTTTGGGGCTAATAGTATGCTAGACGATTGGGAAGAGAATTTGGCTGTGATAACTGCCAATAGAACAAAAGATGATGAACTTGTACTTATTCATCTTGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os06g01650.2 (Oryza sativa), 3'ss of exon 5
------ttcgaccttaacattttgcaaaagtttctattgt-atcttt-gcctcaacaagctctctctctctgtgtctctctctcaatcttttcttatgaaatttccagTTTGGGGCTAATAGTATGCTAGACGATTGGGAAGAGAATTTGGCTGTGATAACTGCCAATAGAACAAAAGATGATGAACTTGTACTTATTCATCTTGGAG
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cttgacttcccattccatgattttcatacattttagttctcatcttttatcgtgtgtggatcattagggttgaacctaacttagcatttttgttggatagGCTGTGAATT-----CTAAGAGCATGCTGGATGATTGGCAAGAGAATTTGGCTATTATAACTGCAAACAGGACGAAAGGTGATGATCTTGTAATTACGCACCTTG---
upper sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G03580.1 (Glycine max), 3'ss of exon 10
-----------------------------------------ttcgaccttaacattttgcaaaa--gtttctattgtatctttgcctcaacaagctct--ctctctctgtgtctctctctcaatcttttcttatgaaatttccagTTTGGGGCTAATAGTATGCTAGACGATTGGGAAGAGAATTTGGCTGTGATAACTGCCAATAGAACAAAAGATGATGAACTTGTACTTATTCATCTTGGAG
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gtaatcctaataggataaattaagaagccatgcaaaatatatgcaatccagatgtattgttacattgcttcaatagtttcaaaggtt-attagtttctaattcatttggaagctcaatctttaggtgttgctttgccatttt-agGTTGGATCCAATGGCATGCTTGATGATTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGATGATGAACTTGTAATTATTCACCTTGGTG
upper sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G41800.1 (Glycine max), 3'ss of exon 7
--------------------------ttcgaccttaacattttgcaaaagtttctattgtatctttgcctcaacaagctc------------tctctctctgtgtctctctctcaatcttttcttatgaaatttcca----gTTTGGGGCTAATAGTATGCTAGACGATTGGGAAGAGAATTTGGCTGTGATAACTGCCAATAGAACAAAAGATGATGAACTTGTACTTATTCATCTTGGAG
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gtaatcctaattggataaactaagaagccatgcaaaatatatcaaatcaagacgtattgttccattgcctcaatagtttcaaaggttatcagtttctaattgatttggaagctcaatcttttgttgttgcttttccatccagGTTGGATCCAACGGCATGCTTGATGATTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGATGATGAACTTGTAATTATTCACCTAGGTG
upper sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G41790.1 (Glycine max), 3'ss of exon 9
--------------------------ttcgaccttaacattttgcaaaagtttctattgtatctttgcctcaacaagctctctctctctgtgtctctct------------ctcaatcttttcttatgaaatttcca-----gTTTGGGGCTAATAGTATGCTAGACGATTGGGAAGAGAATTTGGCTGTGATAACTGCCAATAGAACAAAAGATGATGAACTTGTACTTATTCATCTTGGAG
| | || |||| | | |||||| | |||| |||| | || | | | || ||| | ||||| ||||| || | |||||| | |||| | ||| ||||||| || |||||||| |||||| ||||||| |||||||| || ||||| |||| ||||||||||||| ||||||| ||||| |
gtaatcctaataagataaactaagaagccatgcaaaatatttgcaatccagatgtattgttacattgcttcaatagtttcaaagtttattggtttctatttgatttggaagctcaaacttttgttgttgcttttccatttcagGTTGGATCCAATGGTATGCTTGATGATTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGGTGATGAACTTGTAATTATTCACCTTGGTG
upper sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G03590.1 (Glycine max), 3'ss of exon 10
------------------------------ttcgaccttaacattttgcaaaagt----ttctattgtatctttgcctcaacaagctctctctctctgtgtctctct----ctcaatcttttcttatgaaatt-----tccagTTTGGGGCTAATAGTATGCTAGACGATTGGGAAGAGAATTTGGCTGTGATAACTGCCAATAGAACAAAAGATGATGAACTTGTACTTATTCATCTTGGAG
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gtaatcctaataggataaactaagaagccatgcaaaatatatgcattccagatgtgttgttatgttgcttcaatattttcaaaggttatcagtttctatttgatttggaagctcaaacttttgttattgccttgccatttcagGTTGGATCCGATGGTATGCTTGATGATTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAAGTGATGAACTTGTAATTATTCACCTAGGTG
upper sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G47490.1 (Arabidopsis thaliana), 3'ss of exon 5
ttcgaccttaacattttgcaaaagtttctattgtatctttgcctcaacaagctctctctctctgtgtctctctctcaatctttt----cttatgaaatttccagTTTGGGGCTAATAGTATGCTAGACGATTGGGAAGAGAATTTGGCTGTGATAACTGCCAATAGAACAAAAGATGATGAACTTGTACTTATTCATCTTGGAG
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-catagggaactagatcactccatttcaaagggcatattttcttatgcag---ctctgtcatgggagcttgttaataatgtcttaatgtttccctgaattgcagTTTGGATGTAGTAGCATGCTTGACAGTTGGGAAGAGAATTTGGGTATAATTACTGCGAACAGAACCACAGATGATGAGCTTGTGATTACTCATCTTGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacaagctctctctctctgtgtctctctctcaatcttttcttatgaaatttccagTTTGGGGCTAATAGTATGCTAGACGATTGGGAAGAGAATTTGGCTGTGATAACTGCCAATAGAACAAAAGATGATGAACTTGTACTTATTCATCTTGGAG
tttcc CT-rich tract
ttttcttatgaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcgaccttaacattttgcaaaagtttctattgtatctttgcctcaacaagctctctctctctgtgtctctctctcaatcttttcttatgaaatttccagTTTGGGGCTAATAGTATGCTAGACGATTGGGAAGAGAATTTGGCTGTGATAACTGCCAATAGAACAAAAGATGATGAACTTGTACTTATTCATCTTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - -ccttaac
- - - - - - - - -gcaaaag
- - - - - - - - - - - - - - - - - - - - -cctcaac