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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattctctaaactctatctgctcattgtcgctgggttttgggttcccttggtttccttttcagatttatatttacagtaattttttcaagctaattactaaagagagtttttgtggtagactatgaagggcttatgaattttctcgtttaccatttttttttcagGAAGAGAAAAGGACAATGGTTGCATCGGCCTTTGGTGAAGAACATGGTGGAAGCTCTGCGACACGTCTAACAGTAGACGATCTCAAGTATCTGTTTATGG

Basic information

species Arabidopsis thaliana
transcript AT3G20010.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G20010.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv10s0071g00780.t01 (Vitis vinifera), 3'ss of exon 9
gtattctctaaactctatctgctcattgtcgctgggttttgggttcccttggtttccttttcagatttatatttacagtaattttttcaagctaattactaaagagagtttttgtggtagactatgaagggcttatgaattttctcgtttaccatttttttttcagGAAGAGAAAAGGACAATGGTTGCATCGGCCTTTGGTGAAGAACATGGTGGAAGCTCTGCGACACGTCTAACAGTAGACGATCTCAAGTATCTGTTTATGG
                                                         |  | | ||| ||||| |   || |     ||||||| ||| ||     || |    |  |   |  |  |  | || | | |||| ||  |       | |||| |||||||| || |||| |||||||||||| || ||||||||||| ||   |||| | ||||| || || || || || || ||||| || ||||| || ||||
-------------------------------------------------------tttgatgatattgatattgatgatagtg---gcaagcta-ttattaccct-agatgaaatcatcatcccttgatagtttgtaatttttgtcacta------tgttttgcagGAAGACAAGAGGAAAATGGTTGCATCTGCTTTTGGTGAAGATCAAACTGGAGGATCTGCAACTCGCCTCACCGTTGAAGATCTTAAATATCTATTCATGG
















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|163974035|gb|ES156363.1|ES156363
EST:     GAGGATAGAA-TTTGAAGCTTCAG                         GAAGAGAAAAGGACAATGGTTGCATCGGCCTTTGGTGAAGAACATGGTGGA
genomic: GAGGATAGAATTTTGAAGCTTCAGgtattctcta ... tttttttcagGAAGAGAAAAGGACAATGGTTGCATCGGCCTTTGGTGAAGAACATGGTGGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtggtagactatgaagggcttatgaattttctcgtttaccatttttttttcagGAAGAGAAAAGGACAATGGTTGCATCGGCCTTTGGTGAAGAACATGGTGGAAGCTCTGCGACACGTCTAACAGTAGACGATCTCAAGTATCTGTTTATGG
                            ttttctcgtttaccat  CT-rich tract
                                    tttaccattttttttt  TA-rich tract