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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttgttcttttgctactatgactatgagtccatttcatttgctagatttttgcatgtcgtcttctgctgtcattgatttgcaggcttcacattgttgttctttgttgtagGGCATGATCCTGTTATGGGATGTTGACTCTGGACTTGCTCAAATTGACAAGTATTTTCACAGCAATGACAACCATGTCATTGCTGGTGCACTATTAGGGG

Basic information

species Vitis vinifera
transcript Vv12s0028g03130.t01
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0028g03130.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA12G13410.1 (Glycine max), 3'ss of exon 14
gtatttgttcttttgctactatgactatgagtccatttcatttgctagatttttgcatgtcgtcttctgctgtcattgatttgcaggcttcacattgttgttctttgttgtagGGCATGATCCTGTTATGGGATGTTGACTCTGGACTTGCTCAAATTGACAAGTATTTTCACAGCAATGACAACCATGTCATTGCTGGTGCACTATTAGGGG
                         || || |    ||        | |||||   ||       | | |  | ||  |||| ||      ||| |  |||    ||    |||| |||||  |  | |||||||||||||| ||||||||||||||||||||||| || || || ||||| || |||||||||||||||||| || | || |
------------------------gtacgaattttcttaccaaaacaaattttcttatccatgggtgtaccat-ataaattt-catttacaacactagtgtatcatg--acagGGTATGATTTTACTCTGGGATGTTGACTCGGGACTTGCTCAAATTGACAAGTACTTCCATAGTAATGATAATCATGTCATTGCTGGTGCATTACTGGGTG

upper sequence: Vv12s0028g03130.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 14
gtatttgttcttttgctactatgactatgagtccatttcatttgctagatttttgcatgtcgtcttctgctgtcattgatttgcaggcttcacattgttgttctttgttgtagGGCATGATCCTGTTATGGGATGTTGACTCTGGACTTGCTCAAATTGACAAGTATTTTCACAGCAATGACAACCATGTCATTGCTGGTGCACTATTAGGGG
                         ||||| |    ||        |  ||||   ||  |||  |  |     ||  |||| ||   || | | |  |||    ||    |||| |||||  |  | |||||||||||||| ||||||||||||||||||||||| || || || ||||| || |||||||||||||||||| || | || |
------------------------gtatgaattttcttaccaaaacaatttttcttat-ccgtggttggaccatataaattt-catttttaagactagtgtatcatg--acagGGTATGATTTTACTCTGGGATGTTGACTCGGGACTTGCTCAAATTGACAAGTACTTCCATAGTAATGATAATCATGTCATTGCTGGTGCATTACTGGGAG
















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|30304134|gb|CB980928.1|CB980928
EST:     GGCTTTTTAAGAATAAAGAACATGGGAAAGCCAGTGCTGCAGCAAGTCTG                         GGCATGATCCTGTTATGGGATGTTGACTCTGGACTTGCTCAAATTGACAAG
genomic: GGCTTTTTAAGAATAAAGAACATGGGAAAGCCAGTGCTGCAGCAAGTCTGgtatttgttc ... tttgttgtagGGCATGATCCTGTTATGGGATGTTGACTCTGGACTTGCTCAAATTGACAAG
EST: gi|71864029|gb|DT013084.1|DT013084
EST:     GGCTTTTTAAGAATAAAGAACATGGGAAAGCCAGTGCTGCAGCAAGTCTG                         GGCACGATCCTGTTATGGGATGTTGACTCTGGACTTGCTCAAATTGACAAG
genomic: GGCTTTTTAAGAATAAAGAACATGGGAAAGCCAGTGCTGCAGCAAGTCTGgtatttgttc ... tttgttgtagGGCATGATCCTGTTATGGGATGTTGACTCTGGACTTGCTCAAATTGACAAG
EST: gi|30304206|gb|CB981000.1|CB981000
EST:     GGCTTTTTAAGAATAAAGAACATGGGAAAGCCAGTGCTGCAGCAAGTCTG                         GGCATGATCCTGTTATGGGATGTTGACTCTGGACTTGCTCAAATTGACAAG
genomic: GGCTTTTTAAGAATAAAGAACATGGGAAAGCCAGTGCTGCAGCAAGTCTGgtatttgttc ... tttgttgtagGGCATGATCCTGTTATGGGATGTTGACTCTGGACTTGCTCAAATTGACAAG
EST: gi|110707945|gb|EE084922.1|EE084922
EST:     GGCTTTTTAAGAATAAAGAACATGGGAAAGCCAGTGCTGCAGCAAGTCTG                         GGCATGATCCTGTTATGGGATGTTGACTCTGGACTTGCTCAAATTGACAAG
genomic: GGCTTTTTAAGAATAAAGAACATGGGAAAGCCAGTGCTGCAGCAAGTCTGgtatttgttc ... tttgttgtagGGCATGATCCTGTTATGGGATGTTGACTCTGGACTTGCTCAAATTGACAAG
EST: gi|71860625|gb|DT009680.1|DT009680
EST:     GGCTTTTTAAGAATAAAGAACATGGGAAAGCCAGTGCTGCAGCAAGTCTG                         GGCACGATCCTGTTATGGGATGTTGACTCTGGACTTGCTCAAATTGACAAG
genomic: GGCTTTTTAAGAATAAAGAACATGGGAAAGCCAGTGCTGCAGCAAGTCTGgtatttgttc ... tttgttgtagGGCATGATCCTGTTATGGGATGTTGACTCTGGACTTGCTCAAATTGACAAG
EST: gi|71863903|gb|DT012958.1|DT012958
EST:     GGCTTTTTAAGAATAAAGAACATGGGAAAGCCAGTGCTGCAGCAAGTCTG                         GGCACGATCCTGTTATGGGATGTTGACTCTGGACTTGCTCAAATTGACAAG
genomic: GGCTTTTTAAGAATAAAGAACATGGGAAAGCCAGTGCTGCAGCAAGTCTGgtatttgttc ... tttgttgtagGGCATGATCCTGTTATGGGATGTTGACTCTGGACTTGCTCAAATTGACAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcgtcttctgctgtcattgatttgcaggcttcacattgttgttctttgttgtagGGCATGATCCTGTTATGGGATGTTGACTCTGGACTTGCTCAAATTGACAAGTATTTTCACAGCAATGACAACCATGTCATTGCTGGTGCACTATTAGGGG
               cattgat  putative branch site (score: 4)
                                       ttgttcttt  putative PPT
                attgattt  TA-rich tract