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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgtcctgaaacatattgtcatggttttaacttttaacaaaaatgcattttactagcctctcccatggacttgatcttgtgttgcaaatttttgttttgcagGGGATCTTGGGCAGAGTTATGACTCAAACATAACCTTAACACATTATGAGAATAACCCAACAAAAGGGCAAGCGGTTTTGTTCGTCGGCGATATCTCATA

Basic information

species Arabidopsis thaliana
transcript AT2G16430.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G16430.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv03s0038g00230.t01 (Vitis vinifera), 3'ss of exon 3
gtactgtcctgaaacatattgtcatggttttaacttttaacaaaaatgcattttac-tagcctctc----ccatggacttgatcttgtgttgcaaatttttgttttgcagGGGATCTTGGGCAGAGTTATGACTCAAACATAACCTTAACACATTATGAGAATAACCCAACAAAAGGGCAAGCGGTTTTGTTCGTCGGCGATATCTCATA
       | | |   || ||    ||    ||  |||| | |||  |   |||  | | |  | |     || | |  | ||| |     | |  |   ||| || |||||||||||||||||||||||||| ||||| || ||  | || || |||||    |||||  |||| ||  || | || ||||| || || ||  | |||||
-------cattatgtat-ttagtgtgtccatatgttttcataaatgtttgtttagcattgttttttgattcctttgggtcgat-tcactctactgagcattgctt-gcagGGGATCTTGGGCAGAGTTATGATTCAAATATGACACTTACGCACTATGAATTGAACCCTGCAAAGGGAAAAACCGTGTTGTTTGTTGGAGACCTTTCATA

upper sequence: AT2G16430.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv03s0038g00250.t01 (Vitis vinifera), 3'ss of exon 3
gtactgtcctgaaacatattgtcatggttttaacttttaacaaaaatgcattttac--tagcctct---cccatggacttgatcttgtgttgcaaatttttgttttgcagGGGATCTTGGGCAGAGTTATGACTCAAACATAACCTTAACACATTATGAGAATAACCCAACAAAAGGGCAAGCGGTTTTGTTCGTCGGCGATATCTCATA
       | | |  ||| ||    ||    ||  |||| | |||      |||  |  | |  | |    || | |  | ||| |     | |  |   ||| || |||||||||||||||||||||||||| ||||| || ||  | || || |||||    |||||  | || ||  || | || ||||| || || ||  | |||||
-------cattatgcat-ttagtgtgtccatatgttttcataaatgcttgtttagcgttggtttttgattcctttgggtcgat-tcactctactgagcattgctt-gcagGGGATCTTGGGCAGAGTTATGATTCAAATATGACACTTACGCACTATGAATTGAACCCTGCGAAGGGAAAAACCGTGTTGTTTGTTGGAGACCTTTCATA
















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|124799208|gb|EH888887.1|EH888887
EST:     TTTTGGTCTCATTG                         GGGATCTTGGGCAGAGTTATGACTCAAACATAACCTTAACACATTATGAGA
genomic: TTTTGGTCTCATTGgtactgtcct ... tgttttgcagGGGATCTTGGGCAGAGTTATGACTCAAACATAACCTTAACACATTATGAGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttactagcctctcccatggacttgatcttgtgttgcaaatttttgttttgcagGGGATCTTGGGCAGAGTTATGACTCAAACATAACCTTAACACATTATGAGAATAACCCAACAAAAGGGCAAGCGGTTTTGTTCGTCGGCGATATCTCATA
                     acttgat  putative branch site (score: 5)
                                         tttttgtttt  putative PPT
                                      aaatttttgtttt  TA-rich tract