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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagattagactctgtttgctttaaatgaaaatttgtgttgttgacttttttttttcattgaatgtgtgtattatttgttatgttagctgagattgttaagttaagaaggcaggctagttgtagtgaatctctttgcttttctagtttcctcttttctcacaagaattttccaatttcagGACCGTCTGAAGAAACTGAAGTCAGAACATGGGAAGGTCCAACTGGGAAACATCACTGTTGATATG

Basic information

species Arabidopsis thaliana
transcript AT2G44350.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G44350.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os11g33240.3 (Oryza sativa), 3'ss of exon 3
gttagattagactctgtttgctttaaatgaaaatttgtgttgttgacttttttttttcattgaatgtgtgtattatttgttatgttagctgagattgttaagttaagaaggcaggctagttgtagtgaatctctttgcttttctagtttcctcttttctcacaagaattttccaatttcagGACCGTCTGAAGAAACTGAAGTCAGAACATGGGAAGGTCCAACTGGGAAACATCACTGTTGATATG
                                      | |    | ||   |||| | |  | | | | ||| |  || | |  |  |  ||||    | | ||  || |||              | || |||| |  |||| ||                               ||||| ||  | |||||||| || |||||||||||||||||||| || |||||||| ||||||||||||
------------------------------------tagctcaccagttcacttttacctaaactctatatatgagctgatttcctgtcaaagatc---aggatagaaaagca------------caactcactttaccattctggta------------------------------cagGATCGCTTAAAGAAACTTAAATCAGAACATGGGAAGGTCCAGCTTGGAAACATAACTGTTGATATG
















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|164102586|gb|ES032213.1|ES032213
EST:     GCTGCAAGAGTTAATTCCGGAACAGCAG                         GACCGTCTGAAGAAACTGAAGTCAGAACATGGGAAGGTCCAACTGGGAAAC
genomic: GCTGCAAGAGTTAATTCCGGAACAGCAGgttagattag ... ccaatttcagGACCGTCTGAAGAAACTGAAGTCAGAACATGGGAAGGTCCAACTGGGAAAC
EST: gi|47832067|gb|CK121751.1|CK121751
EST:     CGCAGCTGCAAGAGTTAATTCCGGAACAGCAG                         GACCGTCTGAAGAAACTGAAGTCAGAACATGGGAAGGTCCAACTGGGAAAC
genomic: CGCAGCTGCAAGAGTTAATTCCGGAACAGCAGgttagattag ... ccaatttcagGACCGTCTGAAGAAACTGAAGTCAGAACATGGGAAGGTCCAACTGGGAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatctctttgcttttctagtttcctcttttctcacaagaattttccaatttcagGACCGTCTGAAGAAACTGAAGTCAGAACATGGGAAGGTCCAACTGGGAAACATCACTGTTGATATG
                             ttctcac  putative branch site (score: 2)
                                         ttttcc  putative PPT
                                    aagaatttt  TA-rich tract