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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaaaattcttcttcataaacactagtagaacttctacgcatttggaaaaatgattaagaatgatctctcatattatgggtttattttggtatgtacagGTTATGGTGAATGGGCTTCTATTTCAGCTATCTCTTCCACTCAACTTTCTCGGCAGTGTGTATCGTGAAACTATACAAAGTCTTGTTGACATGAAATCCA

Basic information

species Vitis vinifera
transcript Vv06s0004g08350.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g08350.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA14G38800.1 (Glycine max), 3'ss of exon 9
-----gtgaaaaattcttcttcataaacactagtagaacttctacgcatttggaaaaatgattaagaatgatctctcatattatgggtttattttggtatgtacagGTTATGGTGAATGGGCTTCTATTTCAGCTATCTCTTCCACTCAACTTTCTCGGCAGTGTGTATCGTGAAACTATACAAAGTCTTGTTGACATGAAATCCA
     || ||||    || ||  | || |  | || |      |     ||  |   ||  |||| ||| ||  |    ||| |   || | ||    |||  ||||| ||||||||||||||||| || || ||||||||||||||||| || || || ||||| |||||||| ||||| || ||||| ||||||||||| ||||
tcttagtcaaaatgatttttttcttaaaataattaaa----taaaattattcaatctatatttaataattattacctgaattgtaatttaaattcaacatg--cagGTAATGGTGAATGGGCTTCTCTTCCAACTATCTCTTCCACTCAATTTCCTTGGTAGTGTTTATCGTGAGACTATTCAGAGTCTAGTTGACATGAAGTCCA

upper sequence: Vv06s0004g08350.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA02G40490.1 (Glycine max), 3'ss of exon 9
----gtgaaaa--attcttcttcataaacactagtagaacttctacgcatttggaaaaatgattaagaatgatctctcatattatgggtttattttggtatgtacagGTTATGGTGAATGGGCTTCTATTTCAGCTATCTCTTCCACTCAACTTTCTCGGCAGTGTGTATCGTGAAACTATACAAAGTCTTGTTGACATGAAATCCA
    || | ||  ||| || ||| |||| |  | || |      |     ||  |   ||  |||| ||| ||  |    |||||    | | ||   ||||  ||||| ||||||||||| || || || || ||||||||||||||||| || || || ||||| |||||||| ||||| || ||||| ||||||||||| ||||
ctttgtcataatgattttttttcttaaa-ataattaaa----taaaattattcaatctatatttaataattattacctggattataatctaaattcaatatg--cagGTAATGGTGAATGGACTACTCTTCCAACTATCTCTTCCACTCAATTTCCTTGGTAGTGTTTATCGTGAGACTATTCAGAGTCTAGTTGACATGAAGTCCA

upper sequence: Vv06s0004g08350.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT5G58270.1 (Arabidopsis thaliana), 3'ss of exon 8
----gtgaaaaattc--ttcttcataaacactagtagaacttctacgcatttggaaaaatgattaagaatgatctctcatat-tatgggtttattttggtatgtacagGTTATGGTGAATGGGCTTCTATTTCAGCTATCTCTTCCACTCAACTTTCTCGGCAGTGTGTATCGTGAAACTATACAAAGTCTTGTTGACATGAAATCCA
    |||     ||   || ||| |  ||| | |||    || |     | || |    | ||  | | || | ||| |||    |  |  ||||| |||   | ||||||||||||||||| ||||| |||||||| |||||||| || || ||| | || ||||| || |||||||| || || || ||||| ||||||||||| |
gtcagtgcgtcctttgatttttccttgacattggtat--tttatgtttctctgcattttttatccaaattgttttctaataagcttttgcatatttgggtg-atgcagGTTATGGTGAATGGACTTCTCTTTCAGCTGTCTCTTCCTCTAAATTTTTTGGGTAGTGTTTACCGTGAAACAATTCAGAGCCTTGTGGACATGAAATCAA

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|18458309|gb|BM436587.1|BM436587
EST:     TGTTATGTTCACATGGGATTATGAATGGCGAGATGACAGTTGGTGATTTG                         GTTATGGTGAATGGGCTTCTATTTCAGCTATCTCTTCCACTCAACTTTCTC
genomic: TGTTATGTTCACATGGGATTATGAATGGCGAGATGACAGTTGGTGATTTGgtgaaaaatt ... gtatgtacagGTTATGGTGAATGGGCTTCTATTTCAGCTATCTCTTCCACTCAACTTTCTC
EST: gi|110698612|gb|EE076310.1|EE076310
EST:     TGTTATGTTCACATGGGATTATGAATGGCGAGATGACAGTTGGTGATTTG                         GTTATGGTGAATGGGCTTCTATTTCAGCTATCTCTTCCACTCAACTTTCTC
genomic: TGTTATGTTCACATGGGATTATGAATGGCGAGATGACAGTTGGTGATTTGgtgaaaaatt ... gtatgtacagGTTATGGTGAATGGGCTTCTATTTCAGCTATCTCTTCCACTCAACTTTCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggaaaaatgattaagaatgatctctcatattatgggtttattttggtatgtacagGTTATGGTGAATGGGCTTCTATTTCAGCTATCTCTTCCACTCAACTTTCTCGGCAGTGTGTATCGTGAAACTATACAAAGTCTTGTTGACATGAAATCCA
                                    tttatttt  TA-rich tract