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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactctttctctctttttctatctctttatttctatgtgtatttcgaatggtgtgtgtgtgtggaggtcatttctcgatctgtgattttcttgttttttgcttgtctttacagTGTCCGGCGAGGTGCCGGAAGAGCCGGTTGTTTCCAAGAAATCTGGGCTTCTCTTCGAGAAACGTTTGATCGAGAGACACATATCG

Basic information

species Vitis vinifera
transcript Vv05s0049g01840.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0049g01840.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G037698_T02 (Zea mays), 3'ss of exon 1
gtaactctttctctctttttctatctctttatttctatgtgtatttcgaatggtgtgtgtgtgtggaggtcatttctcgatctgtgattttcttgttttttgcttgtctttacagTGTCCGGCGAGGTGCCGGAAGAGCCGGTTGTTTCCAAGAAATCTGGGCTTCTCTTCGAGAAACGTTTGATCGAGAGACACATATCG
        |  |  |  | ||  || ||     | | ||| || |     | |  | | ||    |   || ||||  || ||   |  |  |    | | ||||  |  |  ||| ||||| ||||||||||| |||||||| || || ||||| || |||||||||||||||   ||  | |||||| |  ||||   |
-------gtaatgcccctctccctccctc-gcatgtctgtctactaaccctagcttctctgatccg---tcgtttcgtgagct---aactcgtcccgtgtcgctt--ccctgtagTCTCCGGTGAGGTGCCGGACGAGCCGGTGGTGTCGAAGAAGTCGGGGCTTCTCTTCGAGCGGCGGCTCATCGAGCGCTACATTGAG

upper sequence: Vv05s0049g01840.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G324540_T01 (Zea mays), 3'ss of exon 1
gtaac-tctttctctctttttc-tatctctttatttctatgtgtatttcgaatggtgtgtgtgtgtggaggtcatttctcgatctgtgattttcttgttttttgcttgtctttacagTGTCCGGCGAGGTGCCGGAAGAGCCGGTTGTTTCCAAGAAATCTGGGCTTCTCTTCGAGAAACGTTTGATCGAGAGACACATATCG
||||   || |||| ||   ||  |||||||   | |||    ||  |    ||                   ||  |||  |  ||||    ||   |  |  |   ||     ||| ||||||||||||||||| |||||||| || || ||||| || ||||| |||||||||   ||  | |||||| |  ||||   |
gtaatgcctctctccctccctcgcatctcttgtctcctagccctagcttatctg-------------------atccctcacttcgtgag---ctaactcgtcccgcttccccgtagTCTCCGGCGAGGTGCCGGACGAGCCGGTCGTGTCGAAGAAGTCGGGGCTACTCTTCGAGCGGCGGCTCATCGAGCGCTACATTGAG
















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|110729437|gb|EE105388.1|EE105388
EST:     CTAGCTTTCTCAGCCACTATGAACTGCTCCA                         TGTCCGGCGAGGTGCCGGAAGAGCCGGTTGTTTCCAAGAAATCTGGGCTTC
genomic: CTAGCTTTCTCAGCCACTATGAACTGCTCCAgtaactcttt ... gtctttacagTGTCCGGCGAGGTGCCGGAAGAGCCGGTTGTTTCCAAGAAATCTGGGCTTC
EST: gi|71858292|gb|DT007347.1|DT007347
EST:     CAGAGCTTCCGGAGAAACCCTAGCTTTCTCAGCCACTATGAACTGCTCCA                         TGTCCGGCGAGGTGCCGGAAGAGCCGGTTGTTTCCAAGAAATCTGGGCTTC
genomic: CAGAGCTTCCGGAGAAACCCTAGCTTTCTCAGCCACTATGAACTGCTCCAgtaactcttt ... gtctttacagTGTCCGGCGAGGTGCCGGAAGAGCCGGTTGTTTCCAAGAAATCTGGGCTTC
EST: gi|161710544|gb|FC058133.1|FC058133
EST:     CAGAGCTTCCGGAGAAACCCTAGCTTTCTCAGCCACTATGAACTGCTCCA                         TGTCCGGCGAGGTGCCGGAAGAGCCGGTTGTTTCCAAGAAATCTGGGCTTC
genomic: CAGAGCTTCCGGAGAAACCCTAGCTTTCTCAGCCACTATGAACTGCTCCAgtaactcttt ... gtctttacagTGTCCGGCGAGGTGCCGGAAGAGCCGGTTGTTTCCAAGAAATCTGGGCTTC
EST: gi|110687481|gb|EE064937.1|EE064937
EST:     CAGAGCTTCCGGAGAAACCCTAGCTTTCTCAGCCACTATGAACTGCTCCA                         TGTCCGGCGAGGTGCCGGAAGAGCCGGTTGTTTCCAAGAAATCTGGGCTTC
genomic: CAGAGCTTCCGGAGAAACCCTAGCTTTCTCAGCCACTATGAACTGCTCCAgtaactcttt ... gtctttacagTGTCCGGCGAGGTGCCGGAAGAGCCGGTTGTTTCCAAGAAATCTGGGCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtggaggtcatttctcgatctgtgattttcttgttttttgcttgtctttacagTGTCCGGCGAGGTGCCGGAAGAGCCGGTTGTTTCCAAGAAATCTGGGCTTCTCTTCGAGAAACGTTTGATCGAGAGACACATATCG
                           ttttcttgttttttgc  CT-rich tract
                          attttcttgtttttt  TA-rich tract