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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCACCGTCTCCATTCAGGTCTTTGAAGGTGAAAGAAGTCTCACCAAGGACTGCAGGCTACTCGGGAAATTCGACCTCACTGGAGTCCCACCGGCCCCAAGgtttgcttcctcttcttttaccccttagtaaatggtaaattagtctcattttgaatatcaaaataattatcctgatctcgttttgacag

Basic information

species Arabidopsis thaliana
transcript AT5G42020.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G42020.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv16s0098g01580.t01 (Vitis vinifera), 5'ss of exon 7
CCACCGTCTCCATTCAGGTCTTTGAAGGTGAAAGAAGTCTCACCAAGGACTGCAGGCTACTCGGGAAATTCGACCTCACTGGAGTCCCACCGGCCCCAAGgtttgcttcctcttcttttaccccttagtaaatggtaaattagtctcattttgaat----atcaaaataattatcctgatc-------tcgttttgacag
                 ||||||||||||||||| |||||||| ||||||||||||   || || || || ||  |  | ||| |  | || || ||||||||  |   |    ||||   | ||     |       ||   |||| | |  |||     |     || | | |  ||||       | |||| |||||
-----------------GTCTTTGAAGGTGAAAGGAGTCTCACAAAGGACTGCAGGGAGCTTGGAAAGTTTGATTTATCAGGAATTGCCCCAGCACCAAGgttatccctcatgcctttggtctctgttctatctaatcatgtttctcctatcaaatttgtgtttgcttactgaccaggatcaacttgtttgtttggacag

upper sequence: AT5G42020.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv02s0025g02140.t01 (Vitis vinifera), 5'ss of exon 7
CCACCGTCTCCATTCAGGTCTTTGAAGGTGAAAGAAGTCTCACCAAGGACTGCAGGCTACTCGGGAAATTCGACCTCACTGGAGTCCCACCGGCCCCAAGgtttgc----ttcctcttcttttaccccttagtaaatggtaaattagtctcattttgaatatcaaaataattatcctgatctcgttttga-cag
                 || |||||||||||||| |||||||| ||||||||| | |  ||||||||||| || || | |||| |||| || || |||||||||||        ||  ||   || | |  |||||   ||          |    ||| ||  |  | || |||    ||   | |||| |||
-----------------GTTTTTGAAGGTGAAAGGAGTCTCACAAAGGACTGCCGACAGCTCGGGAAATTTGATCTTAATGGAATCCCTCCAGCTCCAAGgtttgcgaaacctgtccactccaactcttctgtaaa--atactcctactgtaggcagaa-attgatgtgataatctgattcctatgttgaacag
















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|125259684|gb|EL273769.1|EL273769
EST:     TGCAGGCTACTCGGGAAATTCGACCTCACTGGAGTCCCACCGGCCCCAAG                         AAGGAAACCCCTCAAATCGAGGTCACATTTGAA
genomic: TGCAGGCTACTCGGGAAATTCGACCTCACTGGAGTCCCACCGGCCCCAAGgtttgcttcc ... gttttgacagA-GGAA-CCCCTCAAATCGAGGTCACATTTGAA