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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcagatttgtaaaaatttactaaaattgttttctatgaagagaaacactatgaaccattagtagacttgtacttttgcagGCAGATATCGAAACTGTGAAGCTTGCTATCTGCTCAGCTGTTGATGTGATGCAGGCAATGGGATCCTCCATATGTGCTTTACTCTCAAGG

Basic information

species Vitis vinifera
transcript Vv11s0037g00560.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0037g00560.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G36740.2 (Glycine max), 3'ss of exon 4
gtatgcagatttgtaaaaatttactaaaattgttttctatgaagagaaacactatgaaccattagtagacttgtacttttgcagGCAGATATCGAAACTGTGAAGCTTGCTATCTGCTCAGCTGTTGATGTGATGCAGGCAATGGGATCCTCCATATGTGCTTTACTCTCAAGG
||||| |   | ||     ||   |    | | |   |   ||||||  |||||   | ||||| |    ||  |||||| ||||||||||| |||  | |||||| ||||||||  |||||||||||||  ||||| |||||||||||  | || ||  |||| || ||| ||
gtatgtatggtggtttctgttcttttggttcgatgcgtgcaaagaga--cacta-acatcattactgtgtttacactttttcagGCAGATATTGAACATTTGAAGCATGCTATCTATTCAGCTGTTGATGCCATGCAAGCAATGGGATCTGCTATCTGCCCTTTGCTGTCACGG

upper sequence: Vv11s0037g00560.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G07980.1 (Glycine max), 3'ss of exon 3
gtatgcagatttgtaaaaatttactaaaattgttttctatgaagagaaacactatgaaccattagtagacttgtacttttgcagGCAGATATCGAAACTGTGAAGCTTGCTATCTGCTCAGCTGTTGATGTGATGCAGGCAATGGGATCCTCCATATGTGCTTTACTCTCAAGG
|||||     | ||     | |  |     |    |   || | ||| ||||||   | ||||| ||   ||  |||||| ||||||||||| |||  | |||||| ||||||||  |||||||||||||  ||||| |||||||||||  | || ||  |||| || |||  |
gtatgtgtggtggtttctgtgtctttttggttcaatgcgtgcaaagagacacta-acatcattactatgtttacacttttacagGCAGATATTGAACATTTGAAGCATGCTATCTATTCAGCTGTTGATGGCATGCAAGCAATGGGATCTGCTATCTGCCCTTTGCTGTCACAG
















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|71887499|gb|DT036554.1|DT036554
EST:     CGTTTGCCAGTTACCGGAGGTGCAAGG                         GCAGATATCGAAACTGTGAAGCTTGCTATCTGCTCAGCTGTTGATGTGATG
genomic: CGTTTGCCAGTTACTGGAGGTGCAAGGgtatgcagat ... acttttgcagGCAGATATCGAAACTGTGAAGCTTGCTATCTGCTCAGCTGTTGATGTGATG
EST: gi|71885067|gb|DT034122.1|DT034122
EST:     CGTTTGCCAGTTACCGGAGGTGCAAGG                         GCAGATATCGAAACTGTGAAGCTTGCTATCTGCTCAGCTGTTGATGTGATG
genomic: CGTTTGCCAGTTACTGGAGGTGCAAGGgtatgcagat ... acttttgcagGCAGATATCGAAACTGTGAAGCTTGCTATCTGCTCAGCTGTTGATGTGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttttctatgaagagaaacactatgaaccattagtagacttgtacttttgcagGCAGATATCGAAACTGTGAAGCTTGCTATCTGCTCAGCTGTTGATGTGATGCAGGCAATGGGATCCTCCATATGTGCTTTACTCTCAAGG
                                            tactttt  CT-rich tract
                               attagta  TA-rich tract