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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTACCGTCTCCATTCAGGTCTTTGAAGGTGAACGAAGTCTCACCAAGGACTGCAGGCTACTCGGGAAATTCGACCTCAATGGAATCCCACCGGCCCCAAGgtttgcttccacttcttttaccccttagtaatggtaaatcagagtctcattttgaacattaaaataattatcctgatctcgttttgacag

Basic information

species Arabidopsis thaliana
transcript AT5G28540.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G28540.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv16s0098g01580.t01 (Vitis vinifera), 5'ss of exon 7
CTACCGTCTCCATTCAGGTCTTTGAAGGTGAACGAAGTCTCACCAAGGACTGCAGGCTACTCGGGAAATTCGACCTCAATGGAATCCCACCGGCCCCAAGgtttgcttccacttcttttaccccttagtaatggtaaatca-gagtctcattttgaac----attaaaataattatcctgatc-------tcgttttgacag
                 ||||||||||||||| | |||||||| ||||||||||||   || || || || ||  |    |||||  | || || ||||||||  |   ||   ||||   | ||  ||  |    ||||| |  |||| | |  ||      ||    || | | |  ||||       | |||| |||||
-----------------GTCTTTGAAGGTGAAAGGAGTCTCACAAAGGACTGCAGGGAGCTTGGAAAGTTTGATTTATCAGGAATTGCCCCAGCACCAAGgttatccctcatgcctttggtctct--gttctatctaatcatgtttctcctatcaaatttgtgtttgcttactgaccaggatcaacttgtttgtttggacag

upper sequence: AT5G28540.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv02s0025g02140.t01 (Vitis vinifera), 5'ss of exon 7
CTACCGTCTCCATTCAGGTCTTTGAAGGTGAACGAAGTCTCACCAAGGACTGCAGGCTACTCGGGAAATTCGACCTCAATGGAATCCCACCGGCCCCAAGgtttgcttccacttcttttaccccttagtaatggtaaatcagagtctcattttgaaca----ttaaaataattatcctgatctcgttttga-cag
                 || |||||||||||| | |||||||| ||||||||| | |  ||||||||||| || || ||||||||||| || || |||||||||||    |     |  || ||         |||||  | | ||  | | |   ||    || |  | || |||    ||   | |||| |||
-----------------GTTTTTGAAGGTGAAAGGAGTCTCACAAAGGACTGCCGACAGCTCGGGAAATTTGATCTTAATGGAATCCCTCCAGCTCCAAGgtttgcg--aaacctgtccactccaactcttctgtaaa--atactcctactgtaggcagaaattgatgtgataatctgattcctatgttgaacag
















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|164031759|gb|ES015154.1|ES015154
EST:     TGCAGGCTACTCGGGAAATTCGACCTCAATGGAATCCCACCGGCCCCAAG                         GGGAACCCCTCCAAATCGAGGTCACATT
genomic: TGCAGGCTACTCGGGAAATTCGACCTCAATGGAATCCCACCGGCCCCAAGgtttgcttcc ... gttttgacagAGGAACCCCTC-AAATCGAGGTCACATT
EST: gi|164130321|gb|ES103219.1|ES103219
EST:     TGCAGGCTACTCGGGAAATTCGACCTCACTGGAGTCCCACCGGCCCCAAG                         AGGAACCCCTCAAAT
genomic: TGCAGGCTACTCGGGAAATTCGACCTCAATGGAATCCCACCGGCCCCAAGgtttgcttcc ... gttttgacagAGGAACCCCTCAAAT
EST: gi|164227113|gb|ES126337.1|ES126337
EST:     TGCAGGCTACTCGGGAAATTCGACCTCAATGGAATCCCACCGGCCCCAAG                         AGGAACCCCTCAAATCG
genomic: TGCAGGCTACTCGGGAAATTCGACCTCAATGGAATCCCACCGGCCCCAAGgtttgcttcc ... gttttgacagAGGAACCCCTCAAATCG
EST: gi|164125383|gb|ES103149.1|ES103149
EST:     TGCAGGCTACTCGGGAAATTCGACCTCAATGGAATCCCACCGGCCCCAAG                         AGGAACCCCTCAAATCGAGGTCACATTCGAAGTGG
genomic: TGCAGGCTACTCGGGAAATTCGACCTCAATGGAATCCCACCGGCCCCAAGgtttgcttcc ... gttttgacagAGGAACCCCTCAAATCGAGGTCACATTCGAAGTGG