Sequence
atgc intronic sequence ATGC exonic sequence...gaagatatgatttctaattgggattaaggttttgtttagttgagttatagttacagacattctctaatgatatgttgctttccactcgtaaattttgcagTTCATATTTTCAACTGCTATGGATGGGAAAATTAAAGCCTGGTTGTATGACAACATTGGGTCCAGAGTTGACTATGATGCTCCTGGGCTATGGTGCACTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0060g01680.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA20G38230.1 (Glycine max), 3'ss of exon 14
------gaagatatgatttctaattgggattaaggttttgtttagttgagttatagt-tacagacattctctaatgatatgttgctttccactcgtaaattttgcagTTCATATTTTCAACTGCTATGGATGGGAAAATTAAAGCCTGGTTGTATGACAACATTGGGTCCAGAGTTGACTATGATGCTCCTGGGCTATGGTGCACTA
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acacacgtaaatggccatgtcaaatgagaatatgtattgatttagc-atctcacaatgtacacacacatgcactctaaaggttgtttat-----gtaa-ctttgcagTTCATATTTTCAACTGCCATTGATGGGAAAATAAAGGCATGGTTATACGATAACATGGGTTCTAGGGTTGACTATGATGCCCCTGGTCACTGGTGCACTA
upper sequence: Vv14s0060g01680.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA10G29090.1 (Glycine max), 3'ss of exon 14
------gaagatatgatttctaattgggattaaggttttgtttag--ttgagttatagttacagacattctctaatgatatgttgctttccactcgtaaattttgcagTTCATATTTTCAACTGCTATGGATGGGAAAATTAAAGCCTGGTTGTATGACAACATTGGGTCCAGAGTTGACTATGATGCTCCTGGGCTATGGTGCACTA
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acatacgtaaatggccatttcaaatgagaatatgtattgatttagcatctcgcaatgtgtacacacatgagct--ctaaaggttgtttat-----gtaa-ctttgcagTTCATATTTTCAACTGCCATTGATGGGAAAATAAAGGCATGGCTATACGATAACATGGGTTCTAGGGTTGACTATGATGCCCCTGGTCACTGGTGCACTA
upper sequence: Vv14s0060g01680.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA19G41840.2 (Glycine max), 3'ss of exon 13
gaagatatgatttcta-attgggatt--aaggttttgtttagttgagttatagttacagacattctctaatgatatgttgctttccactcgtaaattttgcagTTCATATTTTCAACTGCTATGGATGGGAAAATTAAAGCCTGGTTGTATGACAACATTGGGTCCAGAGTTGACTATGATGCTCCTGGGCTATGGTGCACTA
| |||| || | || ||| || || ||| | ||| || || | || || |||| || || | |||| ||||||||| ||||||||||||| || ||||| ||||| ||||||||||| ||||| || || || || || ||||| |||||||| || || | ||||| ||||
--ttacatgagttacacatacatatttcaataattgtattattctagtaattaataaacactgcctttaatcctactgaatgttgtcattgtaa-ctttgcagTTTGTATTTTCAACTGCCATTGATGGCAAAATAAAAGCCTGGTTATATGATAATATGGGTTCTAGGGTTGATTATGATGCCCCAGGTCATTGGTGTACTA
upper sequence: Vv14s0060g01680.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA03G39290.1 (Glycine max), 3'ss of exon 14
----gaagatatgatttctaattgggattaaggttttgtttagttgagttatagttacagacattctctaatgatatgttgctttccactcgtaaattttgcagTTCATATTTTCAACTGCTATGGATGGGAAAATTAAAGCCTGGTTGTATGACAACATTGGGTCCAGAGTTGACTATGATGCTCCTGGGCTATGGTGCACTA
|| || || | | |||| ||| || ||| | ||| || || | || || |||| || || | |||| |||||||||| ||||||||||||| || ||||| ||||| ||||||||||| || || || || || || || ||||| |||||||| || || | ||||| ||||
tacatgagttacgagtacatattgtcgataa---ttgtattattctagtaattaataaacactgcctttaatcttactaaatgttgtcattgtaa-ttttgcagTTTGTATTTTCAACTGCCATTGATGGCAAAATAAAAGCCTGGTTATACGATAATATGGGTTCTAGGGTTGATTATGATGCCCCAGGTCATTGGTGTACTA
upper sequence: Vv14s0060g01680.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT5G27030.2 (Arabidopsis thaliana), 3'ss of exon 12
-------------------------------------------------------------gaagatatgatttctaattgggattaaggttttgtttagttgagttatagttacagac----attctctaatgatatgttgctttccactcgtaaattttgcagTTCATATTTTCAACTGCTATGGATGGGAAAATTAAAGCCTGGTTGTATGACAACATTGGGTCCAGAGTTGACTATGATGCTCCTGGGCTATGGTGCACTA
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gtgcggcaaggattgaatcaaactatattttacatcaattattatactgttttaccaatccgtttgaagaacaataaagtagacgacacatttcatatagtattatcttgcctatgaatttctgttctttaccaaaatacatctcgttcttatttggattt-cagTTCATATTTTCAACCGCCATAGATGGGAAAATAAAAGCCTGGCTTTATGATAATCTGGGTTCCAGAGTTGACTATGATGCTCCCGGTAAATGGTGTACGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatagttacagacattctctaatgatatgttgctttccactcgtaaattttgcagTTCATATTTTCAACTGCTATGGATGGGAAAATTAAAGCCTGGTTGTATGACAACATTGGGTCCAGAGTTGACTATGATGCTCCTGGGCTATGGTGCACTA
ctctaat putative branch site (score: 3)
taaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaagatatgatttctaattgggattaaggttttgtttagttgagttatagttacagacattctctaatgatatgttgctttccactcgtaaattttgcagTTCATATTTTCAACTGCTATGGATGGGAAAATTAAAGCCTGGTTGTATGACAACATTGGGTCCAGAGTTGACTATGATGCTCCTGGGCTATGGTGCACTA
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