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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattcttgacttgatcagcttcgggttttcagattattgccactgaagcttgtacaacttataaagctttttttctttctctctgctcttggtgtacatgtttatgtttttaattagagttttatttggctttgtagGCAGGAAATCCGAGCTTCAACAAGTTCCATGACTTCAGTTCCCAAACCACTAAAGTTTCTGCGTCCCCATTATGGAACTCTTAAAGCGTTTCATGAAACA

Basic information

species Arabidopsis thaliana
transcript AT2G20580.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G20580.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv12s0028g03130.t01 (Vitis vinifera), 3'ss of exon 2
gtaattcttgacttgatcagcttcgggttttcagattattgccactgaagcttgtacaacttataaagctttttttctttctctctgctcttggtgtacatgtttatgtttttaattagagttttatttggctttgtagGCAGGAAATCCGAGCTTCAACAAGTTCCATGACTTCAGTTCCCAAACCACTAAAGTTTCTGCGTCCCCATTATGGAACTCTTAAAGCGTTTCATGAAACA
                                |  |||  |  | |     || ||      |  | |  | |    | ||| | |    |||||     |||  ||   ||| || | |            |||  ||||| |||||  || || ||||||| || |||||||||||||| || ||| |||||||||| || || ||||||||  |||| ||| | ||| ||||||||
-------------------------------taatttagagtgaatttgatttctagtcagcaatatgtgtatcaaatatctgtttcagtttggttggactgtgcataacttttataaaaa--------aaatttacagGCAAGAAATTAGAACTGCAACAAGCTCTATGACTTCAGTTCCAAAGCCATTAAAGTTTCTTCGCCCTCATTATGGTGCTCTAAAATCATTTTATGAAACA
















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|116456406|gb|EG498998.1|EG498998
EST:     GTTCAGGATCCTAATCCGGAATTGCGGAAGGCTGCCCTTGAGAGCATGAG                         GCAGGAAATCCGAGCTTCAACAAGTTCCATGACTTCAGTTCCCAAACCACT
genomic: GTTCAGGATCCTAATCCGGAATTGCAGAAGGCTGCCCTTGAGAGCATGAGgtaattcttg ... ggctttgtagGCAGGAAATCCGAGCTTCAACAAGTTCCATGACTTCAGTTCCCAAACCACT
EST: gi|116437637|gb|EG480229.1|EG480229
EST:     GTTCAGGATCCTAATCCGGAATTGCAGAAGGCTGCCCTTGAGAGCATGAG                         GCAGGAAATCCGAGCTTCAACAAGTTCCATGACTTCAGTTCCCAAACCACT
genomic: GTTCAGGATCCTAATCCGGAATTGCAGAAGGCTGCCCTTGAGAGCATGAGgtaattcttg ... ggctttgtagGCAGGAAATCCGAGCTTCAACAAGTTCCATGACTTCAGTTCCCAAACCACT
EST: gi|125045402|gb|EL117671.1|EL117671
EST:     GTTCAGGATCCTAATCCGGAATTGCAGAAGGCTGCCCTTGAGAGCATGAG                         GCAGGAAATCCGAG
genomic: GTTCAGGATCCTAATCCGGAATTGCAGAAGGCTGCCCTTGAGAGCATGAGgtaattcttg ... ggctttgtagGCAGGAAATCCGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgctcttggtgtacatgtttatgtttttaattagagttttatttggctttgtagGCAGGAAATCCGAGCTTCAACAAGTTCCATGACTTCAGTTCCCAAACCACTAAAGTTTCTGCGTCCCCATTATGGAACTCTTAAAGCGTTTCATGAAACA
                         ttttaat  putative branch site (score: 3)
               atgtttatgtttttaa  TA-rich tract