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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatacttggattctttagcacatgttactgtatcaggaaacgcgtttctttatctgttctcttctagttttatattgttcagatttgtataccatgtcattattgcattttcctttccaattcatgcagATATCTCATGGGAGCTCACATGGACATTCAGGAGTCGCAAATAGAGGAGGTATAAGTGTTGTAGGAAGCCCTGGATATAGTAGTAGCACCAATGGAGTTG

Basic information

species Vitis vinifera
transcript Vv06s0004g03940.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G15480.1 (Glycine max), 3'ss of exon 4
gtatatacttggattctttagcacatgttactgtatcaggaaacgcgtttctttatctgttctcttctagtt-ttatattgttcagatttgtataccatgtcattattgcattttcctttccaattcatgcagATATCTCATGGGAGCTCACATGGACATTCAGGAGTCGCAAATAGAGGAGGTATAAGTGTTGTAGGAAGCCCTGGATATAGTAGTAGCACCAATGGAGTTG
                            ||    |  |  ||  |   || ||    | |||||  ||  || || | |  ||    ||| | |    |     | ||     |  ||     ||   ||||| |||||||||| ||||| | |||||||||||||||| | |||||||||||||||||||||||||||| |||||||| |||||||||||| ||||||||||
---------------------------gtatgagagtaataactgaaatttttagcttattctcacctctttattctgtcattgtattttttgttatttactggttttttgcctgtctcaattatatttgcagCTATCTCATGGAAGCTCCCTTGGACATTCAGGAGTCACCAATAGAGGAGGTATAAGTGTTGTAGGAAACCCTGGATTTAGTAGTAGCACAAATGGAGTTG

upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G07970.2 (Glycine max), 3'ss of exon 4
gtatatacttggattctttagcacatgttactgtatcaggaaacgcgtttctttatctgttctcttctagttttatattgttcagatttgtataccatgtcattattgcattttcctttccaattcatgcagATATCTCATGGGAGCTCACATGGACATTCAGGAGTCGCAAATAGAGGAGGTATAAGTGTTGTAGGAAGCCCTGGATATAGTAGTAGCACCAATGGAGTTG------
                | |   |    | |||| |      | ||   |   | | || |||  ||||    || |||| || |  ||  | |    |    || || |   |  ||     ||   ||||| |||||||||| ||||| |||      |||||| || | |||||||||||||||||||||||||||| |||||||| |||||||||||| ||||||||||      
---------------gtatgagagtaataactgaaattttgagcgtactc--tcacctcttca-ttctgtcattgtattttttatgtt-atgttatttactgttttttcgcctgtctcaattatatttgcagCTATCTCATGGAAGCTCCCAT------TCAGGAATCACCAATAGAGGAGGTATAAGTGTTGTAGGAAACCCTGGATTTAGTAGTAGCACAAATGGAGTTGGTGGTT

upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G04780.1 (Glycine max), 3'ss of exon 5
gtatatac-ttggattctttagcacatgttactgtatcaggaaacgcgtttctttatctgttctcttctagttttatattgttcagatttgtataccatgtcattattgcattttcctttccaattcatgcagATATCTCATGGGAGCTCACATGGACATTCAGGAGTCGCAAAT---AGAGGAGGTATAAGTGTTGTAGGAAGCCCTGGATATAGTAGTAGCACCAATGGAGTTG
|||||    ||| |     |     || | |  ||| ||  ||  | ||| ||    || |||          |   ||| |||  | || |    ||  |  | |  | | |    || |    |   |   ||  |  ||    |   | ||| |  | |  || || | | |   |  |||   ||    | || ||| | |  |||    || |  ||| |           
gtataagtgttgtaggaaatcctggatttaatagtagcacaaatggagttgctggtcctattcc---------tgggattcttccaacttctgctgcaattggtaaccgaaatgctgttccagGATTGGGAGTATCCCCAATTTTGGG--AAATGCAGGTCCCCGAATCACTAGTTCGATGGGAAACATGGTCGGTGGAGGGAACATTGGG---AGGATAAGCTCTGG--------

upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G04780.1 (Glycine max), 3'ss of exon 4
--------gtatatacttggattctttagcacatgttactg-tatcaggaaa--cgcgtttctttatctgttctcttctagttttatattgttcagatttgtataccatgtcattattgcattttcctttccaattca--tgcagATATCTCATGGGAGCTCACATGGACATTCAGGAGTCGCAAATAGAGGAGGTATAAGTGTTGTAGGAAGCCCTGGATATAGTAGTAGCACCAATGGAGTTG
         | | |  ||  | | || |   | ||  | |  || | | ||    | |  | |||| || |||| | ||    || | || |      ||||||| | ||  ||  || |||||  || || |    |  ||||| |||||||||| ||||| ||||||||||||||||||   |  |||||||                                                   
gtgaactcatttgtgttttaacttttaacatcttgagagtaatacctgaaattttgagcatatttaactcttctgt-ctgtcattttgtt-tctgctgttgtataacttgaaatgttttcatttgtctatcaatcgtatttgcagCTATCTCATGGAAGCTCCCATGGACATTCAGGAGTCAACAGCAGAGGAG---------------------------------------------------

upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G40650.1 (Glycine max), 3'ss of exon 4
gtatatacttggattctttagcacatgtt--actgtatcaggaaacgcgtttctttatctgttctcttctagttttatattgttcagatttgtataccatgtcattattgcattttcctttccaattcatgcagATATCTCATGGGAGCTCACATGGACATTCAGGAGTCGCAAAT---AGAGGAGGTATAAGTGTTGTAGGAAGCCCTGGATATAGTAGTAGCACCAATGGAGTTG
         |   |  | ||| | ||  |  | |  ||    | ||   |    ||    || || |||  |      ||| |||  | || |    ||  |  | | || | |    || |    |   |   ||  |  ||    |   | ||| |  | |  |  || ||| |   |  |||   ||   || || ||| | |  |||    || |  ||| |           
------gtataagtgttgtaggaaatcctggatttaatagtaacacaaatggagttgctggtcctattcctg----ggattcttccaacttctgctgcaattgttaactgaaatgctgttccagGATTGGGAGTATCCCCAATTTTGGG--AAATGCAGGTCCTCGTATCACAAGTTCCATGGGAAACATGGTTGGTGGAGGGAACATTGGG---AGGATAAGCCCTGG--------

upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G40650.1 (Glycine max), 3'ss of exon 3
gt-atatacttggattctttagcacatgttactgtatcaggaaa--cgcgtttctttatctgttctcttctagttttatattgttcagatttgtataccatgtcattattgcattttcctttccaattcat--gcagATATCTCATGGGAGCTCACATGGACATTCAGGAGTCGCAAATAGAGGAGGTATAAGTGTTGTAGGAAGCCCTGGATATAGTAGTAGCACCAATGGAGTTG
|| |   | ||| ||| |                || | | ||    | |  | |||| || |||| | ||    || | || |      ||||||| | ||  ||  || |||||  || || | |  ||  |||| ||||||||||  |||| ||||||||||||||||||   ||||||||||                                                   
gtgactcatttgtattttaacatcttgagagtaatacctgaaattctgagcatatttaactcttctgt-ctgtcattttgtt-tctgctgttgtataacttgaaatcttttcatttgtctgtcaattgtatttgcagCTATCTCATGGAGGCTCCCATGGACATTCAGGAGTCAACAATAGAGGAG---------------------------------------------------


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttcagatttgtataccatgtcattattgcattttcctttccaattcatgcagATATCTCATGGGAGCTCACATGGACATTCAGGAGTCGCAAATAGAGGAGGTATAAGTGTTGTAGGAAGCCCTGGATATAGTAGTAGCACCAATGGAGTTG
                                 ttttcctttccaattc  CT-rich tract
        atttgtata  TA-rich tract