Sequence
atgc intronic sequence ATGC exonic sequence...tcatgtatgttaacaagtgacaatagtgcgtattatttatgaagtcctctaaagtggcatctagtctggttttttagtggttgatttgtttgtttttcagGTACTGCAAGGCCTCGAGACAGCTACAAATTGTGTTGATGATATGGATGAATGGTTAGGCATTTTCAATGTGAAACTTAGACACATGAGAGAGGATATTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os11g17600.1 (Oryza sativa), 3'ss of exon 7
--tcatgtatgttaacaagtgacaatagtgcgtattatttatgaagtcctctaaagtggcatctagtctggttttttagtggttgatttgtttgtttttcagGTACTGCAAGGCCTCGAGACAGCTACAAATTGTGTTGATGATATGGATGAATGGTTAGGCATTTTCAATGTGAAACTTAGACACATGAGAGAGGATATTG
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ttttttttgtatctggacctggctttaattggt--tatacatgttattattttttccatcaaacaatccaaatgttaacagctgtaaatttgagatatgcagGTATTGGAGGGCTTAGAAATAGCTAGTATATGTGTTGAAGATTTTGATGAATGGCTTGGTATTTTCAATGTAAAGCTTAGGCATATGAGAGAGGATATAC
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os03g42750.1 (Oryza sativa), 3'ss of exon 7
-------------------------------------------------------------------tcatgtatgttaacaagtgacaatagtgcgtattatttatgaa-gtcctctaaagtggcatctagtctggttt-tttagtggttgatttgtttgtttttcagGTACTGCAAGGCCTCGAGACAGCTACAAATTGTGTTGATGATATGGATGAATGGTTAGGCATTTTCAATGTGAAACTTAGACACATGAGAGAGGATATTG
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gtactgcattctttatacttgatgtggctctttttttttggcaatgaacagtaatgggtatctgattgcactgctgtctgcatttaacctttagttcttcaaatgatgattatgtattttcttggcactaactatatttcattgactgatacaattattggattttcagGTTTTGCAGGGTCTGGATGCTGCTAGTGCAACCGTAGATGATATGGATGAGTGGTTACGCATTTTTAATATGAAGCTCAGGCATATGAGAGAAGATATTG
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G099056_T01 (Zea mays), 3'ss of exon 7
-----------------------------------------------------tcatgtatgttaacaagtgaca---atagtgcgtattatttatgaagtcctctaaag----tggcatctagtctgg----ttttttagtggttgatttgtttgttt-----ttcagGTACTGCAAGGCCTCGAGACAGCTACAAATTGTGTTGATGATATGGATGAATGGTTAGGCATTTTCAATGTGAAACTTAGACACATGAGAGAGGATATTG
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gtattgcttctatgttcctttgcaatgcaatattgacttttgtgcactaattatgatatagtacagcatctgactgccattactcatctcacttttattctggagtgaatgttttgttttttggtatggaagcttattcattgactgatctagttgcttggattttcagGTCTTGCAGGGTCTGGATGCTGCTAGTGCAACTGTAGATGATATGGATGAGTGGCTACGGATTTTCAATCTGAAGCTGAGGCACATGAGAGAAGATATTG
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G18840.1 (Glycine max), 3'ss of exon 7
tcatgtatgttaacaagtgacaatagtgcgtattatt-tatgaagtcctctaaagtggcatctagtctggttttttagtggttgat----ttgtttgtttttcagGTACTGCAAGGCCTCGAGACAGCTACAAATTGTGTTGATGATATGGATGAATGGTTAGGCATTTTCAATGTGAAACTTAGACACATGAGAGAGGATATTG
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-----aatgcaaatcaatttcacaaatctccatttttctttttagttatttataataaattaggttgttctcatagagtggttcatactactttgtgccttgtagGTGTTGCAAGGGCTTGATGCTGCAACCAGTTGTGTGGAAGATATGGATGAATGGTTAAGCATATTCAATGTAAAACTCCGGCACATGAGGGAGGATATTG
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G03710.1 (Glycine max), 3'ss of exon 7
tcatgtatgttaacaagtgacaatagtgcgtattatttatgaagtcctctaaagtggcatctagtctggtttttt--agtggttgat-----ttgtttgttttt--cagGTACTGCAAGGCCTCGAGACAGCTACAAATTGTGTTGATGATATGGATGAATGGTTAGGCATTTTCAATGTGAAACTTAGACACATGAGAGAGGATATTG
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---cttcactttacaaatcattgtgtttctcgtcatt-----agttatttaaaattat-tttaacatgtttttatgaagtggttcatactaataatctgtgcctggcagGTGTTGCAAGGGCTTGAAGCAGCATCAAATTGCGTGGAAGACATGGATGAATGGTTAGGCATGTTCAATGTAAAGCTTCGACACATGAGGGAAGATATTG
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G36540.1 (Glycine max), 3'ss of exon 7
tcatgtatgttaacaagtgacaatagtgcgtattatt-tatgaagtcctctaaagtggcatctagtctggttttttag--tggttgat----ttgtttgtttttcagGTACTGCAAGGCCTCGAGACAGCTACAAATTGTGTTGATGATATGGATGAATGGTTAGGCATTTTCAATGTGAAACTTAGACACATGAGAGAGGATATTG
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-----aatgcaaatcaatttcacaaatctccatttttctttttagttatttataata--aattagtttgttttcatagagtggctcatactgctttgtgccttgcagGTGTTGCAAGGACTTGATGCCGCAACCAGTGTTGTGGAAGATATGGATGAATGGTTAAGCATATTCAATGTAAAACTCCGGCACATGAGGGAGGATATTG
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G47550.2 (Arabidopsis thaliana), 3'ss of exon 7
------tcatgtatgttaacaagtga-caatagtgcgtattatttatgaagtcctc-taaagtggcatctagtctggttttttagtg-gttgatttgtttgtttttcagGTACTGCAAGGCCTCGAGACAGCTACAAATTGTGTTGATGATATGGATGAATGGTTAGGCATTTTCAATGTGAAACTTAGACACATGAGAGAGGATATTG
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gttattccttttctgctaataattattctttggattatcttggtattagacagttcatgggaagacaagt-gtttaattttcttgtatatatatcttcatgcttttcagGTTTTGAATGGACTAGAGGCAGCAACAAATATCGTTGATGACATGGATGAATGGTTAGGAATATTCAACATTAAACTTAGACACATGAGGGAAGACATTG
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G47560.1 (Arabidopsis thaliana), 3'ss of exon 7
------tcatgtatgttaacaagtgacaatagtg----cgtattatttatgaagtcctctaaagtg-gcatctagtctggttttttagtggttgatttgtttgtttttcagGTACTGCAAGGCCTCGAGACAGCTACAAATTGTGTTGATGATATGGATGAATGGTTAGGCATTTTCAATGTGAAACTTAGACACATGAGAGAGGATATTG
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gtaattccttttctgctaattattattctttggattatcttgttattagacagttcatgggatgcgagtgttaaattttgttgtatatatgatcatcttcatgcttttcagGTTTTGAATGGACTAGAGGCAGCAACAAATATCGTTGATGACATGGATGAATGGTTAGGAATATTCAACATTAAACTTAGACACATGAGGGAAGACATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctctaaagtggcatctagtctggttttttagtggttgatttgtttgtttttcagGTACTGCAAGGCCTCGAGACAGCTACAAATTGTGTTGATGATATGGATGAATGGTTAGGCATTTTCAATGTGAAACTTAGACACATGAGAGAGGATATTG
tttgtttgtttttc CT-rich tract
atttgtttgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcatgtatgttaacaagtgacaatagtgcgtattatttatgaagtcctctaaagtggcatctagtctggttttttagtggttgatttgtttgtttttcagGTACTGCAAGGCCTCGAGACAGCTACAAATTGTGTTGATGATATGGATGAATGGTTAGGCATTTTCAATGTGAAACTTAGACACATGAGAGAGGATATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
tcatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatcta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtggttg