Sequence
atgc intronic sequence ATGC exonic sequencegtttaaatatgtgactctttggttggttttagaagaaattttctgtttttaagttatgttttcttttgaaatttagctattttctaattcagaaattatggattcagGGACTAGACACACTGGTTGGTGAACATGGAACTCAGTTGTCCGGGGGCCAAAAGCAGAGAGTTGCTATAGCCAGAGCAATTCTCAAGGACCCGAGAATTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G04600.1 (Glycine max), 3'ss of exon 12
-----------------------------------------------------------------------------------------gtttaaatatgtgactctttggttggttttagaagaaattttctgtttttaagttatgttttcttttgaaatttagctattttctaattcagaaattatggattcagGGACTAGACACACTGGTTGGTGAACATGGAACTCAGTTGTCCGGGGGCCAAAAGCAGAGAGTTGCTATAGCCAGAGCAATTCTCAAGGACCCGAGAATTC
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gtctaccctcaaatctccatttaagtgtcaaaaatgcaatgtgaattactgcttaactgtttgaaatgttctctacatttgtctggattttctttatctgcaatagtatataagacttgagtaaaagtattctcacttctattattatactgaatggtccttttacctcagtaattttgtataataatgaacgtagGGACTAGACACAATGGTTGGTGAGCATGGAGCTCAGCTCTCTGGGGGTCAAAAGCAAAGAGTTGCTATAGCAAGAGCAATTTTGAAAGACCCAAGAATCC
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G17930.1 (Glycine max), 3'ss of exon 6
------------------------------------gtttaaatatgtgactctttggttggttt----tagaagaaattttctgtttttaagttatgttttcttttgaaatttagctattttc--taattcag---aaattatggattcagGGACTAGACACACTGGTTGGTGAACATGGAACTCAGTTGTCCGGGGGCCAAAAGCAGAGAGTTGCTATAGCCAGAGCAATTCTCAAGGACCCGAGAATTC
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gtgagctcttaaaccccatttaaatgtagaaactgcatagtgaattccaattcttcaaagtgtataaggcaaaggaaaatttttcttacttctatctttattattaaagaggtcctttaacctcaataattttgtatgaattatgaacttagGGACTAGACACAATGGTTGGTGAGCATGGTACTCAGCTCTCTGGGGGTCAAAAGCAGAGAGTTGCAATAGCAAGAGCAATTTTGAAAGATCCAAGAATCC
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G17920.1 (Glycine max), 3'ss of exon 6
-----------------------------------------------------------------------------------------gtttaaatatgtgactctttggttggttttagaagaaattttctgtttttaagttatgttttcttttgaaatttagctattttctaattcagaaattatggattcagGGACTAGACACACTGGTTGGTGAACATGGAACTCAGTTGTCCGGGGGCCAAAAGCAGAGAGTTGCTATAGCCAGAGCAATTCTCAAGGACCCGAGAATTC
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gtcaacccttgaatctccatttaaatgtcaaaaatgcatagtgaattactgcttaacagtttgaaatgttctcaacctttgtcaggattatctttatctgcaatactatataagacttaagtaaaagaattcttacttctattactatactgaatgttccttttacctctgtaattttgtataataatgaacgtagGGACTAGACACAATGGTTGGTGAGCATGGGGCTCAGCTTTCTGGGGGTCAAAAGCAAAGAGTTGCAATAGCAAGAGCAATTCTGAAAGACCCAAGAATCC
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G17910.1 (Glycine max), 3'ss of exon 6
-----------------------------------------------------------------------------------------gtttaaatatgtgactctttggttggttttag-aagaaattttctgtttttaagttatgttttcttttgaaatttagctattttctaattcaga-aattatggattcagGGACTAGACACACTGGTTGGTGAACATGGAACTCAGTTGTCCGGGGGCCAAAAGCAGAGAGTTGCTATAGCCAGAGCAATTCTCAAGGACCCGAGAATTC
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gtcaacccttgaatctccatttaaatgtcaaaaatgcatagtgaattactgcttaacagtttgaaatgttcccaacctttgtcaggattatctttatctgcaatactatataagacttaagtaaaagaattcttacttcta--ttattttactgaatgttccttttacatctgtaattttgtataataatgaacgtagGGACTAGACACAATGGTTGGTGAGCATGGAGCTCAGCTCTCTGGGGGTCAAAAGCAAAGAGTTGCAATAGCAAGAGCAATTTTGAAAGACCCAAGAATCC
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G04590.1 (Glycine max), 3'ss of exon 6
-----------------gtttaaatatg-----------tgactctttggttggttttagaagaaattttctgtttttaagt-tatgttttcttttgaaa-------tttagctattttctaattcagaaattatggattcagGGACTAGACACACTGGTTGGTGAACATGGAACTCAGTTGTCCGGGGGCCAAAAGCAGAGAGTTGCTATAGCCAGAGCAATTCTCAAGGACCCGAGAATTC
||||||| | | || | || | ||| | | ||| | || ||| | ||| ||| || || || | || | | || | |||||| | | |||||||||||||| ||||||| || ||||| |||||| | || ||||| |||||||| ||||| || ||||| ||||||||| | || || || ||||| |
gtgagctcttaaaccccatttaaatgtagaaactgattccaattcctcatagtgtataagacaagaattttttttcttacttctatctttgtcattaaaggggtcctttcacctcaataattttttatgaattatatacttagGGACTAGACACAATGGTTGGCGAGCATGGTACTCAGCTCTCTGGGGGTCAAAAGCAAAGAGTGGCAATAGCAAGAGCAATTTTGAAAGATCCAAGAATCC
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G17890.1 (Glycine max), 3'ss of exon 7
gtttaaatatgtgactctttggttggttttagaagaaattttctgtttttaagt-tatgt-tttcttttgaaatttagctattttc-taattcag--aaattatggattcagGGACTAGACACACTGGTTGGTGAACATGGAACTCAGTTGTCCGGGGGCCAAAAGCAGAGAGTTGCTATAGCCAGAGCAATTCTCAAGGACCCGAGAATTC
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--gtgagcttgccattcatctttcatattttgga---atttgctgtgtctgtgtgtgtgtattaagtaagaggcctttttatgtcagtagttttgtaaaattatgagtttagGGACTTGACACGATGGTTGGCGAGCATGGAACTCAGCTCTCTGGAGGTCAAAAACAAAGAATATCTATAGCAAGAGCAATTCTGAAGGACCCAAGAATTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttatgttttcttttgaaatttagctattttctaattcagaaattatggattcagGGACTAGACACACTGGTTGGTGAACATGGAACTCAGTTGTCCGGGGGCCAAAAGCAGAGAGTTGCTATAGCCAGAGCAATTCTCAAGGACCCGAGAATTC
ttctaat putative branch site (score: 2)
tattttctaattcaga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttaaatatgtgactctttggttggttttagaagaaattttctgtttttaagttatgttttcttttgaaatttagctattttctaattcagaaattatggattcagGGACTAGACACACTGGTTGGTGAACATGGAACTCAGTTGTCCGGGGGCCAAAAGCAGAGAGTTGCTATAGCCAGAGCAATTCTCAAGGACCCGAGAATTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA