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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgtttcttcaacaaccatacgagtagtcctttcaatgtttcctttagggttttcaaacaactgtctttgaagcaaatttaaaattaattttttttctctcagATGCATGCTGAACTCCAAGTCCTTTCACCTTTGGTTCCTGTTCGCGAGGTAAACTTCCTCCGCTTCTGCAAGCAGCACGCCGAGGGCGTGTGGGCTGTGG

Basic information

species Vitis vinifera
transcript Vv15s0048g02000.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0048g02000.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G08340.1 (Glycine max), 3'ss of exon 6
gtaagtgtttcttcaacaaccatacgagtagtcctttcaatgtttcctttag-ggttttcaaacaactg-tctttgaagcaaatttaaaattaattttttttctctcagATGCATGCTGAACTCCAAGTCCTTTCACCTTTGGTTCCTGTTCGCGAGGTAAACTTCCTCCGCTTCTGCAAGCAGCACGCCGAGGGCGTGTGGGCTGTGG
                          |||   |   |   | ||   |||||   | |  | |||  || | |||||    |   |   |  | ||  |  |   |||||||||||||||||| ||||| ||||| |||||||| || ||||| ||||| || ||||| || || |||||||| ||||| || || |||||||||||||
-----------------------gtaagtttgctactatttattagttttagcaatgtagagacatttggtttttgatttgacccttttaaaatttggtgcttgatcagATGCATGCTGAACTTCAAGTTCTTTCCCCTTTGGTGCCGGTTCGTGAGGTGAATTTCCTGCGGTTTTGCAAGCAACACGCAGAAGGGGTGTGGGCTGTGG

upper sequence: Vv15s0048g02000.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G01860.1 (Glycine max), 3'ss of exon 5
gtaagtgtttcttcaacaaccatacgagtagtcctttcaatgtttccttt------------agggttttcaaacaactgtctttgaagcaa--atttaaaattaattttttttctctcagATGCATGCTGAACTCCAAGTCCTTTCACCTTTGGTTCCTGTTCGCGAGGTAAACTTCCTCCGCTTCTGCAAGCAGCACGCCGAGGGCGTGTGGGCTGTGG
|||||| |   ||  |      | | || |    ||| | | |||  ||             | ||  |   ||     || |||||    |   ||| ||| ||   |  ||  | |||||||||||||||||| ||||| ||||| |||||||| || ||||| ||||| || ||||| || || |||||||||||||| || ||  ||||||||||||
gtaagtttagtttatattttagttctagcaagtttttaattttttttttcttgtgaagggaaaaggggtgagaatttgggtttttgatttgacccttttaaaatacggtgcttaatatcagATGCATGCTGAACTTCAAGTTCTTTCGCCTTTGGTGCCGGTTCGTGAGGTGAATTTCCTACGGTTTTGCAAGCAGCACGCAGAAGGGTTGTGGGCTGTGG
















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|352782501|gb|FQ470404.1|FQ470404
EST:     ATGTGATATCAAGTGGCATNNNNNNNACCAGAAATGGTGCACTTCAGCTG                         ATGCATGCTGAACTCCAAGTCCTTTCACCTTTGGTTCCTGTTCGCGAGGTA
genomic: ATGTGATATCAAGTGGCATGGGGGGGACCAGAAATGGTGCACTTCAGCTGgtaagtgttt ... tttctctcagATGCATGCTGAACTCCAAGTCCTTTCACCTTTGGTTCCTGTTCGCGAGGTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttttcaaacaactgtctttgaagcaaatttaaaattaattttttttctctcagATGCATGCTGAACTCCAAGTCCTTTCACCTTTGGTTCCTGTTCGCGAGGTAAACTTCCTCCGCTTCTGCAAGCAGCACGCCGAGGGCGTGTGGGCTGTGG
                                  aattaat  putative branch site (score: 3)
                                    ttaattttttttctct  CT-rich tract
              tgtctttgaagcaaat  TA-rich tract