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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagcctctctctcacttcgttttcttcttcaaattccgactactctcgactcttctctcgttttcttcggttttgatgaattcgcaatgatgattttcagAGATCCGAAGGAGGATTGTTCGTTGATATGAATAGTTTTCTTGCTTTCGGGAAGGATTATGTTTCTTGGAACTATGAGAAGACTGGAAACCCTGTTTATC

Basic information

species Arabidopsis thaliana
transcript AT3G20630.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G20630.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA12G22240.1 (Glycine max), 3'ss of exon 1
gtaaagcctctctctcacttcgttttcttcttcaaattccgactactctcgactcttctctcgttt--tcttcggttttgatgaattcgcaa-tgatgattttcagAGATCCGAAGGAGGATTGTTCGTTGATATGAATAGTTTTCTTGCTTTCGGGAAGGATTATGTTTCTTGGAACTATGAGAAGACTGGAAACCCTGTTTATC
            ||   |    ||||  | |   |||    |     ||  ||  | |      ||  |  | |||  || |   ||      |||||| ||| |||| || ||||| || |||||||| || |||  || ||||||||||||||||||||||| ||||  |||||| ||||||||||||||||| ||||| ||| 
------ttggattcctgcaatttttttgtatgttaatgtgtatagagcttcacagtgcaggaaattgatgcttggtactggtttttttttttctgatgaattttagAGGTCGGAAGGTGGTTTGTTCGTCGACATGTGTACTTTTCTTGCTTTCGGGAAGGATTTTGTTGGTTGGAATTATGAGAAGACTGGAAATCCTGTCTATT

upper sequence: AT3G20630.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA06G39770.1 (Glycine max), 3'ss of exon 1
gtaaagcctctctctcacttcgtttt--cttcttcaaattccgactactctcgactcttctctcgttttcttcggttttgatgaattcgcaatgatgattttcagAGATCCGAAGGAGGATTGTTCGTTGATATGAATAGTTTTCTTGCTTTCGGGAAGGATTATGTTTCTTGGAACTATGAGAAGACTGGAAACCCTGTTTATC
  |  |    | | | | |  |||      | || | |     ||    |  || | |  |      | ||    |||| ||   ||     | |||| ||| |||| || ||||| || |||||| |||| |||   | |||||||||||| ||||| |||| ||||  |||||| ||||||||||||||||| ||||| ||| 
aaatggtggattttttagtatgttgcaatgtgtttagagcttcacagtgcaggaatttgattcttggtgctgattttttaatttttt-----ttatgaattttagAGGTCAGAAGGTGGTTTGTTCATTGACATGTGCACTTTTCTTGCTTTTGGGAAAGATTTTGTTGGTTGGAATTATGAGAAGACTGGAAATCCTGTCTATT

upper sequence: AT3G20630.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv19s0014g03920.t01 (Vitis vinifera), 3'ss of exon 1
gtaaagcctctctctcacttcgttttcttcttcaaattccgactactctcgactcttctctcgttttcttc--ggttttgatgaat--tcgcaatgatgatt--ttcagAGATCCGAAGGAGGATTGTTCGTTGATATGAATAGTTTTCTTGCTTTCGGGAAGGATTATGTTTCTTGGAACTATGAGAAGACTGGAAACCCTGTTTATC
        |  ||     || ||||  ||   || ||     ||      |  |   |||    |||||    | ||||| |   |  | |   || |||||  |||||| ||||||||| ||||||||| |||| |||| ||  |||||||| || |||||||| | |||    ||||||||||||||||||||||| ||||||||| 
--------ttgctgattatttgtttg-ttgaacagataaatgctgtcaatggtttaactcagcatttctcaaagattttgtttgttgattgtgttgctgattatttcagAAATCCGAAGGTGGATTGTTCATTGACATGAGTACGTTTCTTGCGTTTGGGAAGGACTGTGTGGACTGGAACTATGAGAAGACTGGAAATCCTGTTTATT

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|86073861|gb|DR369618.1|DR369618
EST:     CTACTCATCGCATCTACAAGCATGAGTGTTGCATCTCCTTCGATACTCCG                         AGATCCGAAGGAGGATTGTTCGTTGATATGAATAGTTTTCTTGCTTTCGGG
genomic: CTACTCATCGCATCTACAAGCATGAGTGTTGCATCTCCTTCGATACTCCGgtaaagcctc ... tgattttcagAGATCCGAAGGAGGATTGTTCGTTGATATGAATAGTTTTCTTGCTTTCGGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgactcttctctcgttttcttcggttttgatgaattcgcaatgatgattttcagAGATCCGAAGGAGGATTGTTCGTTGATATGAATAGTTTTCTTGCTTTCGGGAAGGATTATGTTTCTTGGAACTATGAGAAGACTGGAAACCCTGTTTATC
                         ttttgat  putative branch site (score: 4)
                                                ttttc  putative PPT
                                            atgatttt  TA-rich tract