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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccacctattagtccttgttgcttttatctgctccactagttgaaaccatgatataaattctctaattttgaggtattgaaatttccaactgctaactggctcttattttgcagCATGACAGAGCCGCAGCCAAGCTACTCAGCTTATCGTGAAGCCAGTTTTGGTCATGGCATTCTGGATATTAAAAACAGAACCCATGCTTATTTTGGTTGG

Basic information

species Vitis vinifera
transcript Vv18s0001g13340.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g13340.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G03100.1 (Glycine max), 3'ss of exon 7
gtaccacctattagtccttgttgcttttatctgctccactagttgaaaccatgatataaattctctaattttgaggtattgaaatttccaactgctaactggctcttattt-tgcagCATGACAGAGCCGCAGCCAAGCTACTCAGCTTATCGTGAAGCCAGTTTTGGTCATGGCATTCTGGATATTAAAAACAGAACCCATGCTTATTTTGGTTGG
||||    ||||||       |  |||| | |        ||||   | | |  |  ||||     ||  |  |    || | || ||    |  ||| || |  | | |  ||||| ||||||||||| ||||||||||| ||||| || ||||||||||||||||| ||||||||||| ||||| || |||||||| ||||| |||||| |||||
gtac-gtatattagctagaaataattttgttt------taagtttttagcctttttaaaat-----aaagtgcaatagttaacatctcagtataataattgtccttcaatggtgcagTATGACAGAGCCCCAGCCAAGCTATTCAGCATACCGTGAAGCCAGTTTTGGGCATGGCATTCTTGATATAAAGAACAGAACTCATGCCTATTTTAGTTGG

upper sequence: Vv18s0001g13340.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G03100.3 (Glycine max), 3'ss of exon 8
gtac---cacctattagtccttgttgcttttatctg-ctccactagttgaaaccatgatataa--attctctaattttgaggtattgaaatttccaactgcta-actggctcttattt-tgcagCATGACAGAGCCGCAGCCAAGCTACTCAGCTTATCGTGAAGCCAGTTTTGGTCATGGCATTCTGGATATTAAAAACAGAACCCATGCTTATTTTGGTTGG
||||    |     ||| | |   |   | ||| || || || || ||       || |||    |||   |   ||  || | |     |||  |     || | ||||  | | |  ||||| ||||||||||| |||||||| || ||||| || |||||||| |||||||| ||||| ||||| ||||| || |||||||| |||||  ||||| |||||
gtacgtatattagctagccataaattgatctatatggcttcattatttttcctattgttattgttattaattttgttcaagctttcaccctttttattcagtatattggccttcaatggtgcagTATGACAGAGCCCCAGCCAAGTTATTCAGCATACCGTGAAGCTAGTTTTGGGCATGGTATTCTTGATATAAAGAACAGAACTCATGCCCATTTTAGTTGG
















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|110395663|gb|EC961332.1|EC961332
EST:     GTTTACATAACCATTGGAGATGGAGGAAATCAGGAAGGATTGGCGACTGG                         CATGACAGAGCCGCAGCCAAGCTACTCAGCTTATCGTGAAGCCAGTTTTGG
genomic: GTTTACATAACCATTGGAGATGGAGGAAATCAGGAAGGATTGGCGACTGGgtaccaccta ... tattttgcagCATGACAGAGCCGCAGCCAAGCTACTCAGCTTATCGTGAAGCCAGTTTTGG
EST: gi|34363222|gb|CF404807.1|CF404807
EST:     GTTTACATAACCATTGGAGATGGAGGAAATCAGGAAGGATTGGCGACTGG                         CATGCCAGAGCCGCAGCCAAGCTACTCAGCTTATCGTGAAGCCAGTTTTGG
genomic: GTTTACATAACCATTGGAGATGGAGGAAATCAGGAAGGATTGGCGACTGGgtaccaccta ... tattttgcagCATGACAGAGCCGCAGCCAAGCTACTCAGCTTATCGTGAAGCCAGTTTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctctaattttgaggtattgaaatttccaactgctaactggctcttattttgcagCATGACAGAGCCGCAGCCAAGCTACTCAGCTTATCGTGAAGCCAGTTTTGGTCATGGCATTCTGGATATTAAAAACAGAACCCATGCTTATTTTGGTTGG
                               tgctaac  putative branch site (score: 1)
                                         ctcttatttt  putative PPT
               tattgaaattt  TA-rich tract