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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTCAGGTTAAGAAGAAGCAATTTTTTCGCAACTTCATGACCATTATGTTATTTGGTGCTATTGGAACTCTCATTTCATTTGTTATCATCTCATTTGgtaaaaaaccaatctcaatcaactcccacatttcaatatcatgagtctcatatattttgatgatgtttccggttttgtttttgttatggctag

Basic information

species Arabidopsis thaliana
transcript AT3G06370.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G06370.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os11g42790.1 (Oryza sativa), 5'ss of exon 3
GTTTCAGGTTAAGAAGAAGCAATTTTTTCGCAACTTCATGACCATTATGTTATTTGGTGCTATTGGAACTCTCATTTCATTTGTTATCATCTCATTTGgtaaaaaaccaatctcaatcaactcccacatttcaatatcatgagt-ctcatatattttgatgatgtttccggttttgtttttgttatggctag
||| || ||||||||||| |||||||| |||||||||||||| |||| ||| |||||||| ||||| || || || || ||   | | || ||  | |||||         |||  | || |   || |  ||   || |  || ||||| | | |   |  |   | |  |                    
GTTCCAAGTTAAGAAGAAACAATTTTTCCGCAACTTCATGACTATTACGTTGTTTGGTGCGATTGGGACCCTAATCTCTTTCAGTGTAATTTCCCTCGgtaagttgttttcctct-ttaaattttacctggcatgttcttttgtgctcatctctctcactcgtacattccatcacag---------------

upper sequence: AT3G06370.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G063492_T01 (Zea mays), 5'ss of exon 4
GTTTCAGGTTAAGAAGAAGCAATTTTTTCGCAACTTCATGACCATTATGTTATTTGGTGCTATTGGAACTCTCATTTCATTTGTTATCATCTCATTTGgtaaaaaaccaatctcaat----caactcccacatttcaatatcatgagtctcatatattttgatgatgtttccggttttgtttttgttatggctag----
|||||| || ||||| |||||||| || |||||||| || || ||||| || |||||||||||||| ||||| ||||| ||||| || |||||  |||||||    | ||   || |    ||  |  ||   |   |  |   |  || ||| |||  | ||  |||  |           |  || || | |     
GTTTCAAGTAAAGAAAAAGCAATTCTTCCGCAACTTTATAACAATTATTTTGTTTGGTGCTATTGGGACTCTGATTTCCTTTGTAATAATCTCTCTTGgtaagttgctaaaaccacttgtgcagtttgcatggtcttactttg-gtttcacatgtatgctcatattgtccctaaccacacaatatttttgacgaaaaat

upper sequence: AT3G06370.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv05s0020g01960.t01 (Vitis vinifera), 5'ss of exon 4
GTTTCAGGTTAAGAAGAAGCAATTTTTTCGCAACTTCATGACCATTATGTTATTTGGTGCTATTGGAACTCTCATTTCATTTGTTATCATCTCATTTGgtaaaa-----aaccaatctcaatcaactcccacatttcaatatcatgagtctcatatattttgatgatgtttccggttttg--tttttgttatggctag
 || ||||| || |||||||| |||||||| |||||||||||||| ||| | ||||| |||||||||||||| || || ||||  ||||| ||||| ||||||      ||| ||    | | || |     | ||||   | || | |    |      |   || ||||     | |   | | | ||    ||| 
CTTCCAGGTGAAAAAGAAGCAGTTTTTTCGTAACTTCATGACCATCATGCTGTTTGGAGCTATTGGAACTCTGATATCTTTTGGCATCATATCATTAGgtaaagtcagcaactaaatgtatttaattgttttagttcatgtttataaattctttgcggaatttggaagtttagaactgtagatgtatattgccactaa

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|19876337|gb|AU237168.1|AU237168
EST:     GTTATTTGGTGCTATTGGAACTCTCATTTCATTTGTTATCATCTCATTTG                         GNGCTAAACATCTTT-CNAGAAAATGAATATCGGNGATCTTACCATTGCGG
genomic: GTTATTTGGTGCTATTGGAACTCTCATTTCATTTGTTATCATCTCATTTGgtaaaaaacc ... ttatggctagGTGCTAAACATCTTTTCGAGAAAATGAATATCGGTGATCTTACCATTGCGG