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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatcatcttgtgacatatagaaagcttacttagtagcattataatcatgctttttatgctaatactattgcttgctgttttggattctaacagGGCGAAGCACAAGATTTTCTATTCATCGCAACTGAAAGATACAAGTTTTGTGTTCTTCAATGGGATGCAGAGAATTCTGAGGTTATTACAAG

Basic information

species Vitis vinifera
transcript Vv10s0003g04360.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G30530.1 (Glycine max), 3'ss of exon 3
-----gtaagtatcatcttgtgacatatagaaagcttacttagtagcattataatcatgctttt---tatgctaatactattgcttgct-gttttggattctaacagGGCGAAGCACAAGATTTTCTATTCATCGCAACTGAAAGATACAAGTTTTGTGTTCTTCAATGGGATGCAGAGAATTCTGAGGTTATTACAAG
       || ||  | | |  |   | |   |   ||| |   ||   || || |  |  | ||   ||   || |  | ||| ||| | ||||||| ||| ||||||| |||||||| |||| ||| || || ||||||||||||||||| || |||||||||||||||||| | || | | ||||| || ||||| |
gtgagaaaattaaaagcatacgtgttttttgag--ttattgtctactgttgtagttttattcttccataatgtattttttttgtttgtttgttttggtttcaaacagGGTGAAGCACAGGATTATCTTTTTATTGCAACTGAAAGATACAAATTCTGTGTTCTTCAATGGGATTCTGAAACTGCTGAGCTTGTTACACG

upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G13680.1 (Glycine max), 3'ss of exon 3
gtaagtatcatcttgtgacat--atagaaagcttacttagtagcattataatcatgctttttatgctaatactattgcttgctgttttggattctaacagGGCGAAGCACAAGATTTTCTATTCATCGCAACTGAAAGATACAAGTTTTGTGTTCTTCAATGGGATGCAGAGAATTCTGAGGTTATTACAAG
|| || |   ||  |   | |   |       ||| |   ||   || || |  |   ||  ||  |   | | ||  ||  | |||||| ||| | ||||| ||||| || |||| ||| || || ||||||||||||||||| || |||||||||||||||||| | |||| |  |||| || ||||| |
gtgagaaaattcaagcatccttgttttttgagttattgtctaatgttgtagttttttcttccataatgtaattttttttt--ttttttggtttcaaccagGGTGAAGCGCAGGATTATCTTTTTATTGCAACTGAAAGATACAAATTCTGTGTTCTTCAATGGGATTCCGAGACTGGTGAGCTTGTTACACG

upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G05420.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaagtat-catcttgtgacatatagaaagcttacttagtagcattataatcatgcttttta-tgctaatactattgcttgctgttttggattctaacagGGCGAAGCACAAGATTTTCTATTCATCGCAACTGAAAGATACAAGTTTTGTGTTCTTCAATGGGATGCAGAGAATTCTGAGGTTATTACAAG
|| |||||  ||||  |    | |       |   ||   |   |  |||| |||  ||  | || | ||| |||||    | || ||      |   |||||||||| ||||| ||| | ||||| |||||||| |||||||| || |||||||||||||||||| | |||   |||||| ||||||||||
gtgagtatatatctcttattgtgt-------tcttttgtcatggtcttaataatgagttaaaatgttgatagtattgtccaccgtctt------ttgtagGGCGAAGCGCAAGACTTTTTGTTCATTGCAACTGAGAGATACAAATTCTGTGTTCTTCAATGGGATCCTGAGTCCTCTGAGCTTATTACAAG

upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G21100.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaagtatcatcttgtgacatatagaaagcttacttagtagcattataatcatgctttttatgctaatactattgcttgctgttttggattctaacagGGCGAAGCACAAGATTTTCTATTCATCGCAACTGAAAGATACAAGTTTTGTGTTCTTCAATGGGATGCAGAGAATTCTGAGGTTATTACAAG
|| |||||  | || | |    |  | |  || ||  ||     |    | || | |    |   |||  || |   |     ||    || |  ||||| ||||||||||| ||| | ||  | |||||||||||||| || || ||||||||||||||||||   |||   |||||| ||||||||||
gtgagtatagttttcttat---tgaatacttttctctgt----ctgaggtaatacgtaa-gtaacaatgttaattgatagcacttcatcttttg-cagGGTGAAGCACAAGACTTTTTGTTTGTTGCAACTGAAAGATATAAATTCTGTGTTCTTCAATGGGATTATGAGTCCTCTGAGCTTATTACAAG

upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S203_55V6.1 (Physcomitrella patens), 3'ss of exon 3
gtaagtatcatcttgtgacatatagaaagcttacttag---tagcat-tataatcatgctttttatgctaatactattgctt-gctgttttggatt-ctaacagGGCGAAGCACAAGATTTTCTATTCATCGCAACTGAAAGATACAAGTTTTGTGTTCTTCAATGGGATGCAGAGAATTCTGAGGTTATTACAAG
    ||  | | | || || | |  | |    ||| ||   |||||| |  | | ||      ||||     || |   |||   |||| ||  || || |||||| ||  |||||||  | ||||| ||  |    |||||||| || |||||||||||||||||||||||||| |          ||||||| |
---ggttccttatcgt-acttgtcaacatggaactcagcgctagcatatgaacttataaaaaatatgacgcaacgaaaactttattgttgtgcttttcttacagGGTGAGTCACAAGACGTGCTATTTATATCGTTCGAAAGATATAAATTTTGTGTTCTTCAATGGGATGCAGAAACCGGCTCACCTATTACACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttataatcatgctttttatgctaatactattgcttgctgttttggattctaacagGGCGAAGCACAAGATTTTCTATTCATCGCAACTGAAAGATACAAGTTTTGTGTTCTTCAATGGGATGCAGAGAATTCTGAGGTTATTACAAG
                  tgctaat  putative branch site (score: 2)
            tttttatgctaata  TA-rich tract