Sequence
atgc intronic sequence ATGC exonic sequence...gtatatacacttcctttacagatatgtagcatttcgactagctaaatgtgttggatttctctgggttttatattcatgaatcttgtttgcaacttcacagGATTGGCAAATCCAGCACCAATCATTCAGACATTTTATGCTGAGGATCAGATTTTCAATGATGTCAAACTGGATGGCGTTGTTACTTTGGTTGATGCTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g08260.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g55630.1 (Oryza sativa), 3'ss of exon 3
gtatatacacttc--ctttacagatatgtagcatttcgactagctaaatgtgt-tggatttctctgggttttatattcatgaatcttgtttgcaacttcacagGATTGGCAAATCCAGCACCAATCATTCAGACATTTTATGCTGAGGATCAGATTTTCAATGATGTCAAACTGGATGGCGTTGTTACTTTGGTTGATGCTAA
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ttgtccacaattgaaatcctcagagattcatttttcaaagctactcattaattatttaattatatgaaattttcacacttgtattgtctt---aactttccagGTTTAGCAAATCCAGCACCCATTATACAGACTTTCTATGCAGAAGATACAGTTTTTAATGATGTCAAGCTGGATGGTGTTGTGACTTTAGTAGATGCAAA
upper sequence: Vv09s0002g08260.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G180418_T03 (Zea mays), 3'ss of exon 8
-----------------------------------------------------------gtatatacacttcctttacagatatgta----gcatttcgactagctaaat-gtgttggatttctctgggtt-------ttatattcatgaatcttgtttgc----------aacttcacagGATTGGCAAATCCAGCACCAATCATTCAGACATTTTATGCTGAGGATCAGATTTTCAATGATGTCAAACTGGATGGCGTTGTTACTTTGGTTGATGCTAA
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gtaaagagcttgttaggttattgttcaaacggcagatctcacattaattttttttataagtataaatttgaacagaaaaactaagtaatgtgaatcatgaaaagtttgattatcttggttatccatggatcacataaatcatgttaactgctctccttttttcttcatccaattttttcagGTCTAGCGAATCCAGCACCCATTATACAAACATTCTATGCAGAGGATGTAGTTTTTAATGATGTCAAGCTGGACGGTGTTGTTACTTTAGTTGACGCAAA
upper sequence: Vv09s0002g08260.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G43740.1 (Glycine max), 3'ss of exon 3
----------gtatatacacttcctttacagatatgtagcatttcgactagctaaatgtgttggatttctctgggttttatattcatgaatc-ttgtttgcaacttcacagGATTGGCAAATCCAGCACCAATCATTCAGACATTTTATGCTGAGGATCAGATTTTCAATGATGTCAAACTGGATGGCGTTGTTACTTTGGTTGATGCTAA
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gtaactgccagactttattcttgtttaatatagatatgatagacctccctgtaagttgttatgg-ttgtgcttagtgtgaccgacttgttttgttgtttgta-cttaacagGTTTGGCAAATCCTGCACCAATAATCCAGACCTTTTATGCAGAGGAAAATATTTTTAATGATGTCAAATTGGATGGTGTTGTTACTCTGGTTGATGCGAA
upper sequence: Vv09s0002g08260.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G38450.1 (Glycine max), 3'ss of exon 3
----------gtatatacacttcctttaca-gatatgtagcatttcgactagctaaatgtgttggatttctctgggttttatattcatgaatct-tgtttgcaacttcacagGATTGGCAAATCCAGCACCAATCATTCAGACATTTTATGCTGAGGATCAGATTTTCAATGATGTCAAACTGGATGGCGTTGTTACTTTGGTTGATGCTAA
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gtaactggcagagtttattcttgtttaatataagatttggtagacctccttgttagttgttatgg-tcgtgcttagtatgactgacttgttcccatgtttgtactttgacagGTTTGGCAAATCCAGCACCAATAATCCAGACCTTTTATGCAGAGGAAAACATTTTTAATGAAGTCAAATTGGATGGTGTTGTTACTCTGGTTGACGCAAA
upper sequence: Vv09s0002g08260.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G15730.1 (Arabidopsis thaliana), 3'ss of exon 3
-----gtatatacacttcctttacagatatgtagcatttcgactagctaaatgtgttggatttctctgggttttatattcatgaatcttgtttgcaacttcacagGATTGGCAAATCCAGCACCAATCATTCAGACATTTTATGCTGAGGATCAGATTTTCAATGATGTCAAACTGGATGGCGTTGTTACTTTGGTTGATGCTAA
||| | | | || | || || | | | | | || | || | | || || || || ||| | | |||||||||| || || || || || ||||| || || |||||||||||| | ||||||||||||||||| |||||||| ||||| ||| |||||||||||||
gttcaatattttctatcactctggagctacatgattcgttaag-aaccaactactatg----ttattaaagaataaatgaatatattatgtatattttctttcagGATTGGCTAACCCTGCTCCGATTATTCAAACTTTCTATGCTGAGGATGAAATTTTCAATGATGTCAAGCTGGATGGGGTTGTCACTCTGGTTGATGCTAA
upper sequence: Vv09s0002g08260.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G80480.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatatacacttcctttacagatatgtagcatttcgactagctaaatgtgttggatttctc---tgggttttatattcatgaatcttgtttgcaacttcacagGATTGGCAAATCCAGCACCAATCATTCAGACATTTTATGCTGAGGATCAGATTTTCAATGATGTCAAACTGGATGGCGTTGTTACTTTGGTTGATGCTAA
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---------------gttgggaaagggggcattttcatttagtatgcttagagaatctggggaatgagtaatgactatcttatgtttattttca-ctttttagGATTGGCAAACCCGGCACCGATTATCCAAACCTTTTATGCCGAGGAAGAAATTTTCAATGATGTCAAACTGGACGGTGTTGTTACTCTAGTTGATGCTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtgttggatttctctgggttttatattcatgaatcttgtttgcaacttcacagGATTGGCAAATCCAGCACCAATCATTCAGACATTTTATGCTGAGGATCAGATTTTCAATGATGTCAAACTGGATGGCGTTGTTACTTTGGTTGATGCTAA
ttttatattcatgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatacacttcctttacagatatgtagcatttcgactagctaaatgtgttggatttctctgggttttatattcatgaatcttgtttgcaacttcacagGATTGGCAAATCCAGCACCAATCATTCAGACATTTTATGCTGAGGATCAGATTTTCAATGATGTCAAACTGGATGGCGTTGTTACTTTGGTTGATGCTAA
- - - -cacttcc
- - - - - - - - - - - - - - gcatttc
- - - - - - - - - - - - - - - - - - - - - - - -gtgttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtttgc