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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgctgttagaaacttgtgagagttattggttgttcaaccattttcttttaatccttctttgcccatgtttttgcctgcagATCTCTCAAATGAACCTGACCTTCAGGGAAATAATTCACAACTACAGGAAGCAGCCACAATGCAAGCCACAAATTTTCCGTAGTGTGTTTGTTGATTGGT

Basic information

species Vitis vinifera
transcript Vv04s0008g02780.t01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g02780.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA13G26170.1 (Glycine max), 3'ss of exon 13
-----gtttgctgttagaaacttgtgagagttattggttgttcaaccattttcttttaatccttctttgcccatgtttttgcctgcagATCTCTCAAATGAACCTGACCTTCAGGGAAATAATTCACAACTACAGGAAGCAGCCACAATGCAAGCCACAAATTTTCCGTAGTGTGTTTGTTGATTGGT
       ||    |||||||||| |||| || |||| || | | || |||  |||||  || |||| |         | ||  ||||||| || ||| | ||||| || || | ||| ||  |  |||||||||| ||||| ||||| ||||| |||||| |||| |||||||| |||||||||||||
gtttcacttttgcttagaaacttttgagtgtaattgtttttcctactattacctttttctcattctat---------tatgtgtgcagATTTCACAACTCAACCTAACTTTTAAGGAGATCGTATACAACTACAGAAAGCAACCACACTGCAAACCACAAGTTTTTCGTAGTGTATTTGTTGATTGGT

upper sequence: Vv04s0008g02780.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA04G36700.2 (Glycine max), 3'ss of exon 13
-----gtttgctgttagaaacttgtgagagttattggttgttcaaccattttcttttaatccttctttgcccatgtttttgcctgcagATCTCTCAAATGAACCTGACCTTCAGGGAAATAATTCACAACTACAGGAAGCAGCCACAATGCAAGCCACAAATTTTCCGTAGTGTGTTTGTTGATTGGT
       ||    |||||||||| |||| || |||| || ||| |  |||  |||||  || |||| |         | ||  ||||||| || ||| | || || || || | ||| ||  |  |||||||||| ||||| ||||| ||||| |||||| |||| |||||||| |||||||||||||
gtttcacttttgcttagaaacttttgagtgtaattgttt-ttctattattacctttttctcattctat---------tctgtgtgcagATTTCACAACTCAATCTAACTTTTAAGGAGATCGTATACAACTACAGAAAGCAACCACATTGCAAACCACAAGTTTTTCGTAGTGTATTTGTTGATTGGT

upper sequence: Vv04s0008g02780.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA15G36890.1 (Glycine max), 3'ss of exon 13
-------gtttgctgttagaaacttgtgagagttattggttgttcaaccattttcttttaatccttctttgcccatgtttttgcctgcagATCTCTCAAATGAACCTGACCTTCAGGGAAATAATTCACAACTACAGGAAGCAGCCACAATGCAAGCCACAAATTTTCCGTAGTGTGTTTGTTGATTGGT
        |||| | ||||||||||  ||| || ||  | | ||  |  |||  ||| |  || |||| | |   ||||||     |||||| || ||| ||||||| || || | ||| ||  |  |||||||||| ||||| ||||| |||||  ||||| |||| |||||||| |||||||||||||
gtttcgcttttggt-ttagaaactttagagtgtgatgtgcttttatattattaccttgttctcattctattc---tgtttt-----gcagATTTCACAACTGAACCTAACTTTTAAGGAGATTGTATACAACTACAGAAAGCAACCACATTGCAAAACACAAGTTTTTCGTAGTGTATTTGTTGATTGGT

upper sequence: Vv04s0008g02780.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT3G12280.2 (Arabidopsis thaliana), 3'ss of exon 13
-------gtttgctgttagaaacttg--tgagagttattggttgttcaacca-ttttcttttaatccttctttgcccatgtttttgcctgcagATCTCTCAAATGAACCTGACCTTCAGGGAAATAATTCACAACTACAGGAAGCAGCCACAATGCAAGCCACAAATTTTCCGTAGTGTGTTTGTTGATTGGT
       || || |   |     ||   |    || ||  | | | |||    || ||||  | |    ||||  |||||  |   | || |||| || ||||||| |||||| ||||||||||| ||  |||||||| ||||||| ||||| || || |||  | ||||||| || || | ||| |||  ||
gtgagtagtgtgattcaaagggtttaactatatgtcatctggtttacaatggcttctcttacacttacactttttccatgaatcaccttgtagATATCCCAAATGAGCCTGACTTTCAGGGAAATCATATACAACTACCGGAAGCAACCACAGTGTAAACCATTAGTTTTCCGCAGCGTTTATGTGGATGCGT

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|110710388|gb|EE086681.1|EE086681
EST:     ACCGGCATATTGATCAGATCATCCTCTGTTGTTTCTATGGGCTTGCAAAG                         ATCTCTCAAATGAACCTGACCTTCAGGGAAATAATTCACAACTACAGGAAG
genomic: ACCGGCATATTGATCAGATCATCCTCTGTTGTTTCTATGGGCTTGCAAAGgtttgctgtt ... ttgcctgcagATCTCTCAAATGAACCTGACCTTCAGGGAAATAATTCACAACTACAGGAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggttgttcaaccattttcttttaatccttctttgcccatgtttttgcctgcagATCTCTCAAATGAACCTGACCTTCAGGGAAATAATTCACAACTACAGGAAGCAGCCACAATGCAAGCCACAAATTTTCCGTAGTGTGTTTGTTGATTGGT
                    ttttaat  putative branch site (score: 3)
                          tccttctttgcccatg  CT-rich tract
              attttcttttaat  TA-rich tract