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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgattaaaaatgatgatgaaatgtatgcttttatttttgtttagctgcttcacttatatggaatttccttctatagGAATATAATGCAAAGCTTTCAGATTTCGGTCTGGCAAAAGCTGGCCCTCAGGAAGGTGACACACATGTTTCAACAAGGGTTGTTGGAACATATGGCTATG

Basic information

species Vitis vinifera
transcript Vv11s0016g05720.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g05720.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G22790.1 (Glycine max), 3'ss of exon 4
gtatgtgattaa--aaatgatgat----gaaatgtatgcttttatttttgttt-agctgcttcacttatatggaatttccttctatagGAATATAATGCAAAGCTTTCAGATTTCGGTCTGGCAAAAGCTGGCCCTCAGGAAGGTGACACACATGTTTCAACAAGGGTTGTTGGAACATATGGCTATG
||||||| |||    ||| | | |    |||   | || |||| ||||| |||  | |   | | | | ||| | | |   | ||||||| |||||||| |||||||||||||| ||||| |||||||| || ||||| | ||   | ||||||||||| || ||||| |||||||| ||||| ||||
gtatgtggttacttgaataaggttttcagaagcttttgttttttttttttttttggattacttattaacatgtagtgt---tttatagGAGTATAATGCGAAGCTTTCAGATTTTGGTCTAGCAAAAGCAGGGCCTCAAGGAGACAAAACACATGTTTCTACCAGGGTAGTTGGAACTTATGGTTATG

upper sequence: Vv11s0016g05720.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G12060.1 (Glycine max), 3'ss of exon 4
gtatgtgatta--aaaatgatgatgaaatgtatgcttttatttttgtttagctgcttcacttatatggaatttccttctatagGAATATAATGCAAAGCTTTCAGATTTCGGTCTGGCAAAAGCTGGCCCTCAGGAAGGTGACACACATGTTTCAACAAGGGTTGTTGGAACATATGGCTATG
||||||| |||   |||| | | |   |       ||||  |||| ||    | ||| | | | ||| | | |  || | ||||| |||||||| |||||||||||||| ||||| |||||||| || ||||| | ||   | ||||||||||| || ||||| |||||||| ||||| ||||
gtatgtggttactgaaataaggttttgagaagctttttttgtttttttggattactt-attgacatgtagtgtttttat-tagGAGTATAATGCGAAGCTTTCAGATTTTGGTCTAGCAAAAGCAGGGCCTCAAGGAGACAAAACACATGTTTCTACCAGGGTAGTTGGAACTTATGGTTATG
















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|110364323|gb|EC923876.1|EC923876
EST:     TCCAACATTTTACTTGATTCG                         GAATATAATGCAAAGCTTTCAGATTTCGGTCTGGCAAAAGCTGGCCCTCAG
genomic: TCCAACATTTTACTTGATTCGgtatgtgatt ... ccttctatagGAATATAATGCAAAGCTTTCAGATTTCGGTCTGGCAAAAGCTGGCCCTCAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtatgcttttatttttgtttagctgcttcacttatatggaatttccttctatagGAATATAATGCAAAGCTTTCAGATTTCGGTCTGGCAAAAGCTGGCCCTCAGGAAGGTGACACACATGTTTCAACAAGGGTTGTTGGAACATATGGCTATG
                                          tttccttctat  CT-rich tract
       ttttatttttgttta  TA-rich tract