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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGATACTGCTTTCGAGAAACAGAGTGCTCTTTTTGCACTTGCAGTCTCAGACATAGTTCTTATAAACATgtaagtggtgttctttactttgttttctttgatattaatagataacaggacttcttttgccgtctttatcttatatcttctcggatttgtaatgcag

Basic information

species Arabidopsis thaliana
transcript AT3G13870.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G20610.1 (Glycine max), 5'ss of exon 5
GATGATACTGCTTTCGAGAAACAGAGTGCTCTTTTTGCACTTGCAGTCTCAGACATAGTTCTTATAAACATgtaagtggtgttctttactttgttttctttgatattaatagataacag-----gacttcttttgccgtctttat-cttatatcttctcggatttgtaatgcag---------------------------------------------------------------------
||||| |||||||| || || ||||||||||| ||||| ||||| |||||||| ||||| || |||||||||| |||  | ||   |  ||| |  | ||     ||  |  ||   |      ||||  |||     | ||||    | |  || || | |||| | ||                                                                         
GATGACACTGCTTTTGAAAAGCAGAGTGCTCTATTTGCTCTTGCTGTCTCAGATATAGTGCTAATAAACATgtgagttttttttcctcttttttagttttcacccttgttccatcttaaatactgactaatttcagaatttttaagtctgtggctgcttgtatttcttattttaatgcttttccattttaatcttctttctttatgcaactaatttccctccccctctgcgatgcttgtaaag

upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA07G01230.1 (Glycine max), 5'ss of exon 5
GATGATACTGCTTTCGAGAAACAGAGTGCTCTTTTTGCACTTGCAGTCTCAGACATAGTTCTTATAAACATgtaagtggtgttctttactttgttttctttgatatta-atagataacag-gacttcttttgccgtctttatct-tatatcttctcggatttgtaatgcag---------------------------------------------------------------------
||||| |||||||| || || ||||||||||| ||||| ||||| |||||||| ||||| || |||||||||| |||  |   |  |  || ||||||     | ||| ||   ||| |  ||||  |||     | || |  | | || || || | |||| | ||                                                                         
GATGACACTGCTTTTGAAAAGCAGAGTGCTCTATTTGCTCTTGCTGTCTCAGATATAGTGCTAATAAACATgtgagtttttccccctttttagttttcacccttgttacatctttaatactgactaatttcagaattttgaagtctgtagctgcttgtatttcttattttaatgttttcccatttgaatcttctttctttatgcaactaatttccctccccctctgcaatgcttgcaaag

upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv09s0002g02200.t01 (Vitis vinifera), 5'ss of exon 5
GATGATACTGCTTTCGAGAAACAGAGTGCTCTTTTTGCACTTGCAGTCTCAGACATAGTTCTTATAAACATgtaagtggtgttctttactttgttttct---ttgatattaatagataaca--------ggacttcttttgccgtctttatcttatatcttctcggatttgtaatgcag----------------
||||||||||| || ||||| |||||||| |||||||| ||||| || ||||||||||| || || |||||||||||  | ||    |    |   | |   |||   |  | |||| |            || | |||||  || | | | | ||   || |  || |  ||                      
GATGATACTGCATTTGAGAAGCAGAGTGCCCTTTTTGCTCTTGCTGTTTCAGACATAGTGCTAATCAACATgtaagttttattacaaaacaaggcatataacttggattctacagattatgtttcagttaaacatgttttgaggtatctctttaatggtttatgcgagtaatatcttgaagcgaattttgtttag

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|164109402|gb|ES085428.1|ES085428
EST:     CACTTGCAGTCTCAGACATAGTTCTTATAAACAT                         GTGGTGTCATGATATTGGTCGGGAACAAGACAGCAAATAAACCTCTTTTAA
genomic: CACTTGCAGTCTCAGACATAGTTCTTATAAACATgtaagtggtg ... tgtaatgcagGTGGTGTCATGATATTGGTCGGGAACAAG-CAGCAAATAAACCTCTTTTAA
EST: gi|116444534|gb|EG487126.1|EG487126
EST:     CAGAGTGCTCTTTTTGCACTTGCAGTCTCAGACATAGTTCTTATAAACAT                         GTGGTGTCATGATACTGGTCGGGAACAAGCAGCAAATAAACCTCTTTTAAA
genomic: CAGAGTGCTCTTTTTGCACTTGCAGTCTCAGACATAGTTCTTATAAACATgtaagtggtg ... tgtaatgcagGTGGTGTCATGATATTGGTCGGGAACAAGCAGCAAATAAACCTCTTTTAAA
EST: gi|164028597|gb|ES214154.1|ES214154
EST:     CACTTGCAGTCTCAGACATAGTTCTTATAAACAT                         GTGGTGTCATGATATTGGTCGGGAACAAGCAGCAAATAAACCTCTTT-AAA
genomic: CACTTGCAGTCTCAGACATAGTTCTTATAAACATgtaagtggtg ... tgtaatgcagGTGGTGTCATGATATTGGTCGGGAACAAGCAGCAAATAAACCTCTTTTAAA
EST: gi|124976365|gb|EL049787.1|EL049787
EST:     TGCAGTCTCAGACATAGTTCTTATAAACAT                         GTGGTGTCATGATATTGGTCGGGAACAAGCAGCAAATAAACCTCTTTTAAA
genomic: TGCAGTCTCAGACATAGTTCTTATAAACATgtaagtggtg ... tgtaatgcagGTGGTGTCATGATATTGGTCGGGAACAAGCAGCAAATAAACCTCTTTTAAA