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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGCTCAAGACCAAGCAGGAAGGAGTCGACCCAGATAATGTATATTCTCAAGTTCCATATGAGAAAGGTTTCCAGTTTCTATGGCGCATTGAACGTCAGgtatgttggtttgacagttagaggttttgaggttgttcaatgaaaaaatatgagattggttgtgttttgtttcttgaatgttcag

Basic information

species Vitis vinifera
transcript Vv13s0067g03300.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g03300.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os03g60460.1 (Oryza sativa), 5'ss of exon 2
GAAGCTCAAGACCAAGCAGGAAGGAGTCGACCCAGATAATGTATATTCTCAAGTTCCATATGAGAAAGGTTTCCAGTTTCTATGGCGCATTGAACGTCAGgtatgtt----ggtttgacagtt------agaggttttg--aggttgttcaatgaaaaaatatgagattggttgtgttttgtttcttgaatgttcag-----------------
 ||||| ||| | |||  || |||  | ||||| ||| |||| || ||  ||||||| ||||||||||| ||||| || || ||||||||||| ||||||||  ||       |  |||  ||      |   ||||||  | ||| || ||| ||||   ||||| ||  |  ||  ||||  | |||   ||||                  
TAAGCTGAAGCCAAAGATGGCAGGGATTGACCCTGATGATGTGTACTCAGAAGTTCCCTATGAGAAAGGCTTCCAATTCCTTTGGCGCATTGAGCGTCAGgtgagtgcaaaattgcgactatttgtttcaactgttttgcaacgttctttaatcaaaatcaatgagtttt-tcatgacttgt--cgtgatgtttcattctttttcccctgttag

upper sequence: Vv13s0067g03300.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA20G38780.1 (Glycine max), 5'ss of exon 2
GAAGCTCAAGACCAAGCAGGAAGGAGTCGACCCAGATAATGTATATTCTCAAGTTCCATATGAGAAAGGTTTCCAGTTTCTATGGCGCATTGAACGTCAGgtatgttggtttgacagtt-------agaggttttgaggttgttcaatgaaaaaatatgagattggttgtgttttgtttcttgaatgttcag---------
 |||||||| |  || ||||||||| | |||||||||||||| |||||||| ||||| |||||||||||||| |||||  ||||||||||||| || ||||||| |   |||    | |       | | ||     | | | ||  || |  | |||     |   | | |||| |||     |  ||| |         
AAAGCTCAAAAATAATCAGGAAGGAATTGACCCAGATAATGTCTATTCTCAGGTTCCCTATGAGAAAGGTTTTCAGTTCTTATGGCGCATTGAGCGACAGgtatctgaatttatttgcttcttctgatatgtaacatgctcgctctgtgcatca-tattcctctttctttcttttttttgggagagattctgcattaacca

upper sequence: Vv13s0067g03300.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT5G13520.1 (Arabidopsis thaliana), 5'ss of exon 2
GAAGCTCAAGACCAAGCAGGAAGGAGTCGACCCAGATAATGTATATTCTCAAGTTCCATATGAGAAAGGTTTCCAGTTTCTATGGCGCATTGAACGTCAGgtatgttggtttgacagttagaggttttgaggttgttcaatgaaaaaat-atgagattggttgtgttttgtttcttgaatgttcag
 || ||   || ||| || ||||| || || |||||| ||||||||||||| || |||||||| ||||| ||||| ||| | | ||| |||||||| |||||  ||||  ||| |   |    | || |  ||| |   ||| ||   | |  | | ||||  | | ||   |    ||  |||||
TAAACTGTGGAACAAACAAGAAGGTGTTGATCCAGATGATGTATATTCTCAGGTCCCATATGAAAAAGGATTCCAATTTGTGTTGCGAATTGAACGCCAGgttagttgaattgccctcttc--gcttaggtgttttgttatgtaatgtttacaataatggtcatctatttactggaaaactttcag

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|110426221|gb|EC992622.1|EC992622
EST:     AAGTTCCATATGAGAAAGGTTTCCAGTTTCTATGGCGCATTGAACGTCAG                         ATTGGAAGGCCTGCATTTGATGAATTCCTAAAGAAATATATTGCCACCTTC
genomic: AAGTTCCATATGAGAAAGGTTTCCAGTTTCTATGGCGCATTGAACGTCAGgtatgttggt ... gaatgttcagATTGGAAGGCCTGCATTTGATGAATTCCTAAAGAAATATATTGGCACCTTC
EST: gi|29782758|gb|CB348337.2|CB348337
EST:     AAGTTCCATATGAGAAAGGTTTCCAGTTTCTATGGCGCATTGAACGTCAG                         ATTGGAAGGCCTGCATTTGATGAATTCCTAAAGAAATATATTGGCACCTTC
genomic: AAGTTCCATATGAGAAAGGTTTCCAGTTTCTATGGCGCATTGAACGTCAGgtatgttggt ... gaatgttcagATTGGAAGGCCTGCATTTGATGAATTCCTAAAGAAATATATTGGCACCTTC
EST: gi|29782793|gb|CB348418.2|CB348418
EST:     ATTGAACGTCAG                         ATTGGAAGGCCTGCATTTGATGAATTCCTAAAGAAATATATTGGCACCTTC
genomic: ATTGAACGTCAGgtatgttggt ... gaatgttcagATTGGAAGGCCTGCATTTGATGAATTCCTAAAGAAATATATTGGCACCTTC