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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagaaatagaaacttgtatatttatttgagttccttctttcgtgaaagggttaatttgtttttcagtgcttctaatgacttgcatatctcagGCCTCAGCAAAGAAAGCAAAAGATTTCTTGCCATTTTTGCAACGAAGTAGAAGGCTTCCTGCTATTGTGGAATATGTCCTTAGTGGTCATCGGTTCAAAC

Basic information

species Vitis vinifera
transcript Vv14s0068g00720.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0068g00720.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA08G00910.1 (Glycine max), 3'ss of exon 11
gttagaaata-gaaacttgtatatttatttgagttccttctttcgtgaaagggttaatttgtttttcagtgcttctaatgacttgcatatctcagGCCTCAGCAAAGAAAGCAAAAGATTTCTTGCCATTTTTGCAACGAAGTAGAAGGCTTCCTGCTATTGTGGAATATGTCCTTAGTGGTCATCGGTTCAAAC
|| ||||| | |  | |||||    ||||| | ||  ||  |  |  | |   |||| |  |||  |    ||| | ||         || | |||| |||||||||||||| |||||||||||||| ||  | || ||||||||||   | |||||| ||||||||||||||||| |||| ||||| || ||| 
gtgagaaaaatgttaattgtac---tatttaactt--ttactctgaaacattcttaaatcttttccc--cacttttgatt-------cattttagGCATCAGCAAAGAAAGCCAAAGATTTCTTGCCTTTCCTTCACCGAAGTAGAAAAATCCCTGCTGTTGTGGAATATGTCCTTGGTGGCCATCGCTTTAAAT

upper sequence: Vv14s0068g00720.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA06G17050.3 (Glycine max), 3'ss of exon 11
gttagaaatagaaacttgtatatttatttgagttccttctttcgtgaaagggttaatttgtttttcagtgcttctaatgactt--gcatatctcagGCCTCAGCAAAGAAAGCAAAAGATTTCTTGCCATTTTTGCAACGAAGTAGAAGGCTTCCTGCTATTGTGGAATATGTCCTTAGTGGTCATCGGTTCAAAC
        || |||     ||| |||  |||  |  |  ||       |  | | ||   |   |||   | | |||   |||   |  || | |||| || || |||||||| | ||| |||||||| ||  |||| |||||||||||  |||||||| ||||||||||||| || ||||||||||| || ||  
-------gtaaaaaa----atagttacatgaacttttgtttctacaccaaagcttataaataactcaa-acatgtaactcctttgactcatattagGCATCGGCTAAGAAAGCCAGAGACTTCTTGCCTTTCCTGCACCGAAGTAGAAGAGTTCCTGCTGTTGTGGAATATGTGCTCAGTGGTCATCGTTTTAAGT

upper sequence: Vv14s0068g00720.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 11
gttagaaatagaaacttgtatatttatttgagttccttctttcgtgaaagggttaatttgtttttcagtgcttctaatgacttgcatatctcagGCCTCAGCAAAGAAAGCAAAAGATTTCTTGCCATTTTTGCAACGAAGTAGAAGGCTTCCTGCTATTGTGGAATATGTCCTTAGTGGTCATCGGTTCAAAC
|| ||||| |      | | || | | || |  |  | || | |  | |   ||||| | ||   ||   ||| | ||         || | |||| |||||||||||||| || ||||||||||| ||  | || ||||||||||   | |||||  |||||||||||||||||||||| ||||| || ||| 
gtgagaaaaatgttaat-tgtactaaattcaacttttactct-gaaacattcttaatcttttcccca---cttttgatt-------cattttagGCATCAGCAAAGAAAGCCAAGGATTTCTTGCCTTTCCTTCACCGAAGTAGAAAAATCCCTGCAGTTGTGGAATATGTCCTTAGTGGCCATCGTTTTAAAT

upper sequence: Vv14s0068g00720.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA04G38010.1 (Glycine max), 3'ss of exon 11
gttagaaa-tagaaacttgtatatttatttgagttccttctttcgtgaaagggttaatttgtttttcagtgcttctaatgacttgcatatctcagGCCTCAGCAAAGAAAGCAAAAGATTTCTTGCCATTTTTGCAACGAAGTAGAAGGCTTCCTGCTATTGTGGAATATGTCCTTAGTGGTCATCGGTTCAAAC
|| | ||| |||  || || |  ||| |||     ||     |  | ||    | || |  | |  | ||  | ||  |||||   ||     |||| || || |||||||| | ||| |||||||| ||  |||| |||||||||||  |||||||| ||||||||||||| || ||||| ||||| || ||| 
gtaaaaaaatagtcacatgaacttttgtttctacaccaaagcttataaataactcaaat-atgtacctgt-ttccttttgactcatat----tagGCATCGGCTAAGAAAGCCAGAGACTTCTTGCCTTTCCTGCACCGAAGTAGAAGAGTTCCTGCTGTTGTGGAATATGTGCTCAGTGGCCATCGTTTTAAAT

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|34547333|gb|CF515565.1|CF515565
EST:     TCCATTCTGCAAAGGATTCTCCAGTGATGCATATTACAGACCTTGTAACG                         GCCTCAGCAAAGAAAGCAAAAGATTTCTTGCCATTTTTGCAACGAAGTAGA
genomic: TCCATTCTGCAAAGGATTCTCCAGTGATGCATATTACAGACCTTGTAACGgttagaaata ... catatctcagGCCTCAGCAAAGAAAGCAAAAGATTTCTTGCCATTTTTGCAACGAAGTAGA
EST: gi|30304038|gb|CB980832.1|CB980832
EST:     AGACCTTGTAACG                         GCCTCAGCAAAGAAAGCAAAAGATTTCTTGCCATTTTTGCAACGAAGTAGA
genomic: AGACCTTGTAACGgttagaaata ... catatctcagGCCTCAGCAAAGAAAGCAAAAGATTTCTTGCCATTTTTGCAACGAAGTAGA
EST: gi|30304101|gb|CB980895.1|CB980895
EST:     GACCTTGTAACG                         GCCTCAGCAAAGAAAGCAAAAGATTTCTTGCCATTTTTGTAACGAAGTAGA
genomic: GACCTTGTAACGgttagaaata ... catatctcagGCCTCAGCAAAGAAAGCAAAAGATTTCTTGCCATTTTTGCAACGAAGTAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcgtgaaagggttaatttgtttttcagtgcttctaatgacttgcatatctcagGCCTCAGCAAAGAAAGCAAAAGATTTCTTGCCATTTTTGCAACGAAGTAGAAGGCTTCCTGCTATTGTGGAATATGTCCTTAGTGGTCATCGGTTCAAAC
                                ttctaat  putative branch site (score: 2)
             ttaatttgtttttca  TA-rich tract