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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgaggttctagttcttcagttaatatgtgttccttagttttactttgatttagcaagtactgcgtcttcttttgaatcatctgtgtttactatcaatttctttttgcatttatttatttatctttttttttttgttttccagAGGCCCACAAATATTTTGTGGAGTTCATATCTAAGGCTTATCAGGCTCTCACAGATCCAATCTCACGTGAGAATTATGAAAAGTATGGCCATCCTGATGG

Basic information

species Vitis vinifera
transcript Vv16s0050g01460.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0050g01460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G20400.1 (Glycine max), 3'ss of exon 4
gttgaggttctagttcttcagttaatatgtgttccttagttttactttgatttagcaagtactgcgtcttcttttgaatcatctgtgtttactatcaatttctttttgcatttatttatttatctttttttttttgttttccagAGGCCCACAAATATTTTGTGGAGTTCATATCTAAGGCTTATCAGGCTCTCACAGATCCAATCTCACGTGAGAATTATGAAAAGTATGGCCATCCTGATGG
||||| |     ||  |||||||  |  || || |||| | || |  ||      ||| |  ||     | |||  |   || |  | || ||| ||||| | | |   | | || |||||   |  ||  |||| ||||  |||||| ||||| || || || |||| |||  | || |||||||| ||||| |||||||||||  | ||||| ||||||||||| |||||||||||||||||
gttgaag-----gtgtttcagttgtttagt-tttcttattgttgcaatg------caaattttga----tgtttgcaggaatgtcggcttccta-caattgcctatgtaactgatatattt---tcattccttttatttt--agAGGCACACAAGTACTTCGTTGAGTACATTGCCAAAGCTTATCAAGCTCTTACAGATCCAATAGCTCGTGAAAATTATGAAAAATATGGCCATCCTGATGG

upper sequence: Vv16s0050g01460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G08830.2 (Glycine max), 3'ss of exon 4
gttgaggttctagttcttcagttaatatgtgttccttagttttactttgatttagcaagtactgcgtcttcttttgaatcatctgtgtttactatcaatttctttttgcatttatttatttatctttttttttttgttttccagAGGCCCACAAATATTTTGTGGAGTTCATATCTAAGGCTTATCAGGCTCTCACAGATCCAATCTCACGTGAGAATTATGAAAAGTATGGCCATCCTGATGG
                              |  |   |||  | | |||| |        | |||     ||| | || |   |     |     ||| | | | |   | | || |||||   || ||  |||| ||||  |||||| ||||| || || || |||| |||  | || |||||||| ||||| ||||||||||   | ||||| ||||||||||| |||||||||||||||||
-----------------------------ggcacacaagtacttcgttgagt------acattgccaaagcttatcaagctcttacagat----ccaactgcctatgtaactgatatattt---ttattccttttatttt--agAGGCACACAAGTACTTCGTTGAGTACATTGCCAAAGCTTATCAAGCTCTTACAGATCCAACAGCTCGTGAAAATTATGAAAAATATGGCCATCCTGATGG

upper sequence: Vv16s0050g01460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G79940.3 (Arabidopsis thaliana), 3'ss of exon 4
gttgaggttctagttcttcagttaatatgtgttccttagttttactttgatttagcaagtactgcgtcttcttttgaatcatctgtgtttactatcaatttctttttgcatttatttatttatctttttttttttgttttccagAGGCCCACAAATATTTTGTGGAGTTCATATCTAAGGCTTATCAGGCTCTCACAGATCCAATCTCACGTGAGAATTATGAAAAGTATGGCCATCCTGATGG
        || |||| |||   |  |   | ||  ||  ||    ||||||      | ||| |  |  |  ||  |    |   |  | |   |   |||  || |      |||| || |||| |              |||| ||| | |||||||||||||||||||||||||| || || |||||| | || ||| || | || ||||| || | ||| |||||||| ||||| |||||
-------gtcaagtttttccccttgt---tattttttttttcccttttgatc-----attacggaattatggttgcagcttttgatcctgatagtt--ttttcttctatgcgcatttgttgatctcta-------------cagAAGCCAATAAATATTTTGTGGAGTTCATATCTAAAGCATACCAGGCTTTGACTGATTCAGTATCCCGTGAAAACTTTGAGAAGTATGGTCATCCAGATGG

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|351014635|gb|FQ437637.1|FQ437637
EST:     ATACAGGAGACTCTCGATTCAATACCATCCTGATAAAAATCCGGATCCAG                         AGGCCCACAAATATTTTGTGGAGTTCATATCTAAGGCTTATCAGGCTCTCA
genomic: ATACAGGAGACTCTCGATTCAATACCATCCTGATAAAAATCCGGATCCAGgttgaggttc ... tgttttccagAGGCCCACAAATATTTTGTGGAGTTCATATCTAAGGCTTATCAGGCTCTCA
EST: gi|351040685|gb|FQ438229.1|FQ438229
EST:     ATACAGGAGACTCTCGATTCAATACCATCCTGATAAAAATCCGGATCCAG                         AGGCCCACAAATATTTTGTGGAGTTCATATCTAAGGCTTATCAGGCTCTCA
genomic: ATACAGGAGACTCTCGATTCAATACCATCCTGATAAAAATCCGGATCCAGgttgaggttc ... tgttttccagAGGCCCACAAATATTTTGTGGAGTTCATATCTAAGGCTTATCAGGCTCTCA
EST: gi|351023901|gb|FQ423324.1|FQ423324
EST:     ATACGGGAGACTCTCGATTCAATACCATCCTGATAAAAATCCGGATCCAG                         AGGCCCACAAATATTTTGTGGAGTTCATATCTAAGGCTTATCAGGCTCTCA
genomic: ATACAGGAGACTCTCGATTCAATACCATCCTGATAAAAATCCGGATCCAGgttgaggttc ... tgttttccagAGGCCCACAAATATTTTGTGGAGTTCATATCTAAGGCTTATCAGGCTCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactatcaatttctttttgcatttatttatttatctttttttttttgttttccagAGGCCCACAAATATTTTGTGGAGTTCATATCTAAGGCTTATCAGGCTCTCACAGATCCAATCTCACGTGAGAATTATGAAAAGTATGGCCATCCTGATGG
         tttctttttgcattta  CT-rich tract
       aatttctttttgcatt  TA-rich tract