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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatctacttttccctctgtagcatgcatagattttctgatatatgcatgcctaagaagcactgtctgtctttctctacagCAAGATCCAGTCGGTTTTTGAGCTATCAGATGGTTCGGGCTTGGCCGTTACAGTAGCTCGTTATGAGACACCTGCTCACATTGATATTGACAAG

Basic information

species Vitis vinifera
transcript Vv05s0077g00060.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0077g00060.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA20G34110.1 (Glycine max), 3'ss of exon 12
gtatctacttttccctctgtagcatgcatagattttctgatatatgcatgcctaagaagcactgtctgtctttctctacagCAAGATCCAGTCGGTTTTTGAGCTATCAGATGGTTCGGGCTTGGCCGTTACAGTAGCTCGTTATGAGACACCTGCTCACATTGATATTGACAAG
|||  ||||||    || ||   |  |  | |   |   || || |      |    |  |    || |   | |   ||| |||||||| || ||||||||||| || ||||| || || ||||  ||||| || ||||| || ||||||||||| || |  ||||||||||||
gtagttactttggtttcagttcaaacccaacaagctaaaatttacgt-cattttcctaatatgagctatacatat--gcagGAAGATCCAATCAGTTTTTGAGCTCTCTGATGGCTCTGGATTGGTTGTTACTGTTGCTCGCTACGAGACACCTGCACATACAGATATTGACAAG

upper sequence: Vv05s0077g00060.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT4G17740.2 (Arabidopsis thaliana), 3'ss of exon 11
gtatctacttttccctctgtagcatgcatagattttctgatatatgcatgcctaagaagcactg----tctgtctttctctacagCAAGATCCAGTCGGTTTTTGAGCTATCAGATGGTTCGGGCTTGGCCGTTACAGTAGCTCGTTATGAGACACCTGCTCACATTGATATTGACAAG
|||   |   |  |     ||   |  ||   | |||| | | |  |   ||  | ||   |||    | |  |    | | ||||||||| ||||||||||||||||| || ||||||||||||||||| || ||||| ||||| ||||| ||||| |||||||  ||||| ||||| 
gtaaacaaaatggcgc---tattttttattcttcttctcagagac-cgaaccgtaaaattcctgagactttaacgcattttgcagCAAGATACAGTCGGTTTTTGAGCTTTCTGATGGTTCGGGCTTGGCAGTAACAGTTGCTCGATATGAAACACCAGCTCACACAGATATAGACAAA
















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|349821096|gb|FQ404349.1|FQ404349
EST:     AAAGACAATAAACGTGCAGTGTTGTTTGGAGAACCCACATTTGGAAAAGG                         CAAGATCCAGTCGGTTTTTGAGCTATCAGATGGTTCGGGCTTGGCTGTTAC
genomic: AAAGACAATAAACGTGCAGTGTTGTTTGGAGAACCCACATTTGGAAAAGGgtatctactt ... ttctctacagCAAGATCCAGTCGGTTTTTGAGCTATCAGATGGTTCGGGCTTGGCCGTTAC
EST: gi|349809249|gb|FQ399023.1|FQ399023
EST:     AAAGACAATAAACGTGCAGTGTTGTTTGGAGAACCCACATTTGGAAAAGG                         CAAGATCCAGTCGGTTTTTGAGCTATCAGATGGTTCGGGCTTGGCTGTTAC
genomic: AAAGACAATAAACGTGCAGTGTTGTTTGGAGAACCCACATTTGGAAAAGGgtatctactt ... ttctctacagCAAGATCCAGTCGGTTTTTGAGCTATCAGATGGTTCGGGCTTGGCCGTTAC
EST: gi|351036039|gb|FQ463884.1|FQ463884
EST:     AAAGACAATAAACGTGCAGTGTTGTTTGGAGAACCCACATTTGGAAAAGG                         CAAGATCCAGTCGGTTTTTGAGCTATCAGATGGTTCGGGCTTGGCTGTTAC
genomic: AAAGACAATAAACGTGCAGTGTTGTTTGGAGAACCCACATTTGGAAAAGGgtatctactt ... ttctctacagCAAGATCCAGTCGGTTTTTGAGCTATCAGATGGTTCGGGCTTGGCCGTTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catagattttctgatatatgcatgcctaagaagcactgtctgtctttctctacagCAAGATCCAGTCGGTTTTTGAGCTATCAGATGGTTCGGGCTTGGCCGTTACAGTAGCTCGTTATGAGACACCTGCTCACATTGATATTGACAAG
        ttctgat  putative branch site (score: 3)
                                   ctgtctgtctttctct  putative PPT
     attttctgatatat  TA-rich tract