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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactttctcatgacacaaacacatcctttctttcagtttcagcttctattctttgttctgcataattgtaagttgtacatacataacaatctgaatcttacttctcagACAGTTGCTCTGGTCGGAGAAAGTGGGAGTGGTAAATCAACAGCAATCTCACTGTTGCAGAGATTTTATGACCCGGATTCAGGTCATATCACTCTGGATG

Basic information

species Vitis vinifera
transcript Vv05s0020g00890.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA17G04620.1 (Glycine max), 3'ss of exon 11
gtaacttt--ctcatgacacaaacacatcctttctttcagtttcagcttctattctttgttctgcataat------tgtaagttgtacatacataacaatctga--atcttacttc-----------tcagACAGTTGCTCTGGTCGGAGAAAGTGGGAGTGGTAAATCAACAGCAATCTCACTGTTGCAGAGATTTTATGACCCGGATTCAGGTCATATCACTCTGGATG
|||||     || || ||||       |  |       | ||         || | |  ||||    ||       | || ||  | | ||    | ||||| |   | | | ||            ||||||||||||||| |  || |||||||| ||||| || ||||||| ||||||| || |||| ||||||||||| || ||||||||||| || || |||||||
gtaacaccaactgat-acactggtttgttttgatgcataattcttataggaatacatgattctttgaaacaacccatctaggtctttcttaacagagaatctaatagtttgattttcctgatgaaaatcagACAGTTGCTCTAGCAGGCGAAAGTGGAAGTGGAAAGTCAACAGTAATCTCATTGCTGCAAAGATTTTATGAGCCAGATTCAGGTCAGATTACACTGGATG

upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA13G17920.1 (Glycine max), 3'ss of exon 10
gtaactttctcatgacacaaacacatcctttctttcagtttcagcttctattctttgttctgcataattgtaagttgtacatacataacaatctgaatcttacttctcagACAGTTGCTCTGGTCGGAGAAAGTGGGAGTGGTAAATCAACAGCAATCTCACTGTTGCAGAGATTTTATGACCCGGATTCAGGTCATATCACTCTGGATG
                            |  |||||   || |||    ||  | | |||| |   | | ||| |||   |||| |   ||  | ||          ||||||||||| ||||| ||||||||||| ||||| ||||||||||  || ||||| || || || ||||||||||  ||||||||||| || || |||||  
---------------------------gtaactttctaatt-agcac--atcttgtcttcttctctactctaaattgactatac-tgttaaaataaa----------cagACAGTTGCACTGGTTGGAGAAAGTGGAAGTGGAAAATCAACAGTGATTTCACTATTACAAAGGTTTTATGACCTAGATTCAGGTCACATTACACTGGACC

upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA13G17880.1 (Glycine max), 3'ss of exon 6
-------------------------------gtaactttctcatgacacaaacacatcctttctttcagtttcagcttctattctttgttctgcataattgtaagttgtacatacataacaatctgaatcttacttctcagACAGTTGCTCTGGTCGGAGAAAGTGGGAGTGGTAAATCAACAGCAATCTCACTGTTGCAGAGATTTTATGACCCGGATTCAGGTCATATCACTCTGGATG
                               |   | |  |  | | | ||| ||||  || ||||||     | | |||| |  || ||     |||| |  | |   | |     |  |  ||||    |     |||||| |||||||| |  || |||||||| ||||| || ||||||| ||||||| || |||| ||||||||||| || ||||||||||| || || |||||||
gtaacttaccaaacaatacattggtttgtttgatgcataattctcatagaaatacataatt-ctttcaaacaaaccatctagttcttttt-----taatggagaatctgagagttggattatcctga----tggaaatcagACGGTTGCTCTAGCAGGCGAAAGTGGAAGTGGAAAGTCAACAGTAATCTCATTGCTGCAAAGATTTTATGAGCCAGATTCAGGTCAGATTACACTGGATG

upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA13G17930.2 (Glycine max), 3'ss of exon 10
gtaactttctcatgacacaaacacatcctttctttcagtttcagcttctattctttgttctgcataa--ttgtaagttgtacatacataacaatctgaatcttacttctcagACAGTTGCTCTGGTCGGAGAAAGTGGGAGTGGTAAATCAACAGCAATCTCACTGTTGCAGAGATTTTATGACCCGGATTCAGGTCATATCACTCTGGATG
|||||||||| ||        |||||| |  |||     |||| || || |  |||||||| | |||  |  |   |||   |||| | | |   | ||          |||||||| || ||||| ||||||||||| ||||| ||||||||||  || ||| | || || |||||||||||||| || |||||||| || || |||||||
gtaactttctaattt-----gcacatcttgccttc----ttca-ctactctaatttgttcttcctaaactaatggattgagtatac-tgatacaataaa----------cagACAGTAGCACTGGTTGGAGAAAGTGGAAGTGGAAAATCAACAGTGATTTCATTATTACAAAGATTTTATGACCCAGACTCAGGTCACATTACACTGGATG

upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA17G04590.1 (Glycine max), 3'ss of exon 10
gtaactttctcatgacacaaacacatcctttctttcagtttcagcttctattctttgttctgcataattgtaagttgtacatacataacaatctgaatcttacttctcagACAGTTGCTCTGGTCGGAGAAAGTGGGAGTGGTAAATCAACAGCAATCTCACTGTTGCAGAGATTTTATGACCCGGATTCAGGTCATATCACTCTGGATG
||||| || |  |        |||||| | ||| |   |  |  ||   | |  ||  ||   | | || ||   ||   |||| | | |   ||||          |||||||| || ||||| |||||||||||  |||| ||||| ||||  |||||| |||| || |||||||||||||| || |||||||| || |  |||||||
gtaaccttttagttt-----gcacatcttgtctcttcttcactactctaaattgttcatcc-taaacttatagactgagtatac-tgatataatgaa----------cagACAGTAGCACTGGTTGGAGAAAGTGGATGTGGAAAATCGACAGTGATCTCATTGTTACAAAGATTTTATGACCCAGACTCAGGTCACATTATACTGGATG

upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA13G17910.1 (Glycine max), 3'ss of exon 10
gtaactttctcatgacacaaacacatcctttctttcagtttcagcttctattctttgttctgcataattgtaagttgtacatacataacaatctgaatcttacttctcagACAGTTGCTCTGGTCGGAGAAAGTGGGAGTGGTAAATCAACAGCAATCTCACTGTTGCAGAGATTTTATGACCCGGATTCAGGTCATATCACTCTGGATG
||||||| || ||        |||||| ||||||    |  |  ||   |||  || |||   | | |  ||  |||   |||| |   |   | ||          ||||||||||| ||||| ||||||||||| ||||| |||||||| |  |||||| | || || ||||||||||| || || |  ||| | || || |||||||
gtaacttactaattt-----gcacatcttttcttct--tcactactataattacttcttcc-taaactaatagattgactatac-tgctataataaa----------cagACAGTTGCACTGGTTGGAGAAAGTGGAAGTGGAAAATCAACGGTGATCTCATTATTACAAAGATTTTATGATCCAGACTTGGGTAACATTACACTGGATG

upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA17G04610.1 (Glycine max), 3'ss of exon 11
gtaactt-tctcatgacaca---aacacatcctttctttcagtttcagcttctattctttgttctgcataattgtaagttgtacatacataacaatctgaatcttacttc------tcagACAGTTGCTCTGGTCGGAGAAAGTGGGAGTGGTAAATCAACAGCAATCTCACTGTTGCAGAGATTTTATGACCCGGATTCAGGTCATATCACTCTGGATG
||||||  ||  || |   |        || | |   |    |   ||   | | |  || ||    | ||   |   |    || |    |  |  |  ||   |||        ||||||| ||||||| || || |||||||| ||||| || ||| |||  |||||| |||| || |||||||||||||| ||||| || || || || |||||||
gtaactaatcaaataatctattggtttgatgcataaatctcatcataggaacaagtgattctttcagacaacctttcttaaggcagaatctaagagtttgattacactgatggaaatcagACAATTGCTCTAGTAGGTGAAAGTGGAAGTGGAAAGTCATCAGTGATCTCATTGTTACAAAGATTTTATGACCCAGATTCGGGGCAGATTACACTGGATG

upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA13G17890.1 (Glycine max), 3'ss of exon 12
gtaactttctca-tgacaca---aacacatcctttctttcagtttcagcttctattctttgttctgcataattgtaagttgtacatacat-aacaatctgaatcttactt------ctcagACAGTTGCTCTGGTCGGAGAAAGTGGGAGTGGTAAATCAACAGCAATCTCACTGTTGCAGAGATTTTATGACCCGGATTCAGGTCATATCACTCTGGATG
||||||  |  | | |  ||        |||| |   |    |   ||   | | |  || ||    | ||   |   ||        || ||  |  |  ||   |||        ||||||||||||||| || || ||||| || ||||| || |||||||  |||||| || | || |||||||||| ||| ||||| ||||| || || || ||||
gtaactaacaaaataatccattggtttgatccataaatctcatcataggaacaagtgattctttcagacaaccttttcttaagggagaatcaaagagtttgattacactgatggaaatcagACAGTTGCTCTAGTAGGTGAAAGCGGAAGTGGAAAGTCAACAGTGATCTCATTGCTACAAAGATTTTATGGCCCAGATTCGGGTCAGATTACACTTGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttctgcataattgtaagttgtacatacataacaatctgaatcttacttctcagACAGTTGCTCTGGTCGGAGAAAGTGGGAGTGGTAAATCAACAGCAATCTCACTGTTGCAGAGATTTTATGACCCGGATTCAGGTCATATCACTCTGGATG
                                         atcttac  putative branch site (score: 3)
                                          tcttacttctc  CT-rich tract
        ataattgtaa  TA-rich tract