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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagtcagcaccacaagttctttcaatgtaattggttgtcaacagtgagtgattttgtaaatacttctgcagGCACTTGGATGTTGCTGGTCTGAAGAGTTCAAACCTATACATCTGCAATGGCATCGCACTGTTCTTTGGGTGGTTG

Basic information

species Vitis vinifera
transcript Vv06s0004g08450.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g08450.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G40520.1 (Glycine max), 3'ss of exon 5
gtaaagtcagca-ccacaagttctttca-----atgtaattggttgtcaacagtgagtgattttgtaaatacttctgcagGCACTTGGATGTTGCTGGTCTGAAGAGTTCAAACCTATACATCTGCAATGGCATCGCACTGTTCTTTGGGTGGTTG
||||| |      ||| || | | || |     ||||| ||  || | |||| |   |  |    ||| ||| | |  ||| |||||||| ||||||| || ||||| || || || ||||| || |||||||||||| |||||||||||||||||
gtaaatttgttgtccagaactccatttaccttcatgtactt--ttcttaacattacttattacattaattacatatatagGTACTTGGATATTGCTGGCCTTAAGAGCTCCAAACTTTACATTTGGAATGGCATCGCATTGTTCTTTGGGTGGTTG

upper sequence: Vv06s0004g08450.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G31750.1 (Glycine max), 3'ss of exon 6
gtaaagtcagcaccacaagttc--tttca--atgtaattggtt---gtcaacagtgagtgatt-ttgtaaatacttctgcagGCACTTGGATGTTGCTGGTCTGAAGAGTTCAAACCTATACATCTGCAATGGCATCGCACTGTTCTTTGGGTGGTTG
|||||            ||||   |||||  || | ||    |   | ||||| ||| |  ||  | ||| ||| | | ||||||||||||| |||||||||| ||||| || || || ||| |||| |||||||| ||  ||||||| |||||||||
gtaaatctgttgttcagagtttgatttcatcatctcatgtactttagccaacattgacttgttactttaattacatatacagGCACTTGGATATTGCTGGTCTTAAGAGCTCCAAACTTTACGTCTGGAATGGCATTGCTTTGTTCTTCGGGTGGTTG

upper sequence: Vv06s0004g08450.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA14G38830.1 (Glycine max), 3'ss of exon 5
gtaaagtcagcac-cacaagttctttcaatgtaat-tggttgtca-acagtgagtgattttgtaaat-acttctgcagGCACTTGGATGTTGCTGGTCTGAAGAGTTCAAACCTATACATCTGCAATGGCATCGCACTGTTCTTTGGGTGGTTG
|||||         || || | | || |   | || |  || ||  ||  | | | ||    | ||| || | |  ||| |||||||||||||||| || ||||| || || || ||||| || |||||||| ||| ||||||| |||||||||
gtaaatctgttgttcagaattccatttaccttcatgtacttttcttaccattacttatgacattaattacatatatagGTACTTGGATGTTGCTGGCCTTAAGAGCTCCAAACTTTACATTTGGAATGGCATTGCATTGTTCTTCGGGTGGTTG

upper sequence: Vv06s0004g08450.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G05520.1 (Glycine max), 3'ss of exon 6
-gtaaagtcagcaccacaagttc--tttca--atgtaattggtt---gtcaacagtgagtgatt-ttgtaaatacttctgcagGCACTTGGATGTTGCTGGTCTGAAGAGTTCAAACCTATACATCTGCAATGGCATCGCACTGTTCTTTGGGTGGTTG
 |||||            ||||   |||||  || | ||    |   || |||| ||| | |||  | ||| ||| | | ||||||||||||| |||||| ||| ||||| || || || ||| |||| |||||||| ||| ||||||| |||||||| 
ggtaaatatgttgttcagagtttgatttcatcatctcatgtactttagttaacattgacttattactttaattacatattcaGGCACTTGGATATTGCTGATCTTAAGAGCTCCAAACTTTACGTCTGGAATGGCATTGCATTGTTCTTCGGGTGGTT-

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|122688769|gb|EC925291.1|EC925291
EST:     CTAATGGTTCTGTTCTCTGAGAGTACTACTCCCTTTGTAAATCTAAGATG                         GCACTTGGATGTTGCTGGTCTGAAGAGTTCAAACCTATACATCTGCAATGG
genomic: CTAATGGTTCTGTTCTCTGAGAGTACTACTCCCTTCGTAAATCTAAGATGgtaaagtcag ... acttctgcagGCACTTGGATGTTGCTGGTCTGAAGAGTTCAAACCTATACATCTGCAATGG
EST: gi|122689520|gb|EC940529.1|EC940529
EST:     CTAATGGTTCTGTTCTCTGAGAGTACTACTCCCTTTGTAAATCTAAGATG                         GCACTTGGATGTTGCTGGTCTGAAGAGTTCAAACCTATACATCTGCAATGG
genomic: CTAATGGTTCTGTTCTCTGAGAGTACTACTCCCTTCGTAAATCTAAGATGgtaaagtcag ... acttctgcagGCACTTGGATGTTGCTGGTCTGAAGAGTTCAAACCTATACATCTGCAATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctttcaatgtaattggttgtcaacagtgagtgattttgtaaatacttctgcagGCACTTGGATGTTGCTGGTCTGAAGAGTTCAAACCTATACATCTGCAATGGCATCGCACTGTTCTTTGGGTGGTTG
                                            tacttct  CT-rich tract
                                  attttgtaaatactt  TA-rich tract