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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagtttctttgcattgtctgctgctgattgcaattctgaattctgaaatgtgaaacgtgaattgtgaattttgcttgctatggatgcagGGCTTCTGTTTTCTGTGCTGATCACTGCCGTCCTGACCGACGCGATCAAGGATGGCGTTGGCCGGCCTCGCCCGAATTTCTTCTGGCGATGCTTTCCTGA

Basic information

species Oryza sativa
transcript LOC_Os05g47660.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g47660.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ15968 (Selaginella moellendorffii), 3'ss of exon 2
gcaagtttctttgcattgtctgctgctgattgcaattctgaattctgaaatgtgaaacgtgaattgtgaattttgcttgctatggatgcagGGCTTCTGTTTTCTGTGCTGATCACTGCCGTCCTGACCGACGCGATCAAGGATGGCGTTGGCCGGCCTCGCCCGAATTTCTTCTGGCGATGCTTTCCTGA
                 ||  | |  |  | |   ||||    |||    |   | || ||  || | |||  | |        ||| |||||||    || ||  |     |  |||  ||  ||||  | ||||||||||     ||||| |||||||| ||| |||||||||||||||||||||| ||
-----------------gtaagtttttcttggtttttcttctctctct--tcctacacttgttttctcaatgctac--------gatccagGGCTGGCTTTCTCACTCGCTCTTGCTGGTGTTGTGACAAATGCGATCAAGGTGTCTGTTGGTCGGCCTCGGCCGGATTTCTTCTGGCGATGCTTTCCAGA

upper sequence: LOC_Os05g47660.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ33338 (Selaginella moellendorffii), 3'ss of exon 2
gcaagtttctttgcattgtctgctgctgattgcaattctgaattctgaaatgtgaaacgtgaattgtgaattttgcttgctatggatgcagGGCTTCTGTTTTCTGTGCTGATCACTGCCGTCCTGACCGACGCGATCAAGGATGGCGTTGGCCGGCCTCGCCCGAATTTCTTCTGGCGATGCTTTCCTGA
                 ||  | |  |  | |   ||||    |||    | | | || ||  || | |||  | |        ||| |||||||    || ||  |    ||  |||  ||  ||||  | ||||||||||     ||||| |||||||| ||| |||||||||||||||||||||| ||
-----------------gtaagtttttcttggtttttcttctctctct--tcttacacttgttttctcaatgctac--------gatccagGGCTGGCTTTCTCACTCGCTATTGCTGGTGTTGTGACAAATGCGATCAAGGTGTCTGTTGGTCGGCCTCGACCGGATTTCTTCTGGCGATGCTTTCCGGA
















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|29687339|gb|CB683614.1|CB683614
EST:     GATATACATGAAGAGGAGGAATGTGTATGACCTGCATCATGCGATCCTAG                         GGCTTCTGTTTTCTGTGCTGATCACTGCCGTCCTGACCGACGCGATCAAGG
genomic: GATATACATGAAGAGGAGGAATGTGTATGACCTGCATCATGCGATCCTAGgcaagtttct ... atggatgcagGGCTTCTGTTTTCTGTGCTGATCACTGCCGTCCTGACCGACGCGATCAAGG
EST: gi|25777854|gb|CA752604.1|CA752604
EST:     GATATACATGAAGAGGAGGAATGTGTATGACCTGCATCATGCNATCCTAG                         GGCTTCTGTTTTCTGTGCTGATCACTGCCGTCCTGACCGACGCGATCAAGG
genomic: GATATACATGAAGAGGAGGAATGTGTATGACCTGCATCATGCGATCCTAGgcaagtttct ... atggatgcagGGCTTCTGTTTTCTGTGCTGATCACTGCCGTCCTGACCGACGCGATCAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgaattctgaaatgtgaaacgtgaattgtgaattttgcttgctatggatgcagGGCTTCTGTTTTCTGTGCTGATCACTGCCGTCCTGACCGACGCGATCAAGGATGGCGTTGGCCGGCCTCGCCCGAATTTCTTCTGGCGATGCTTTCCTGA
                              tgaatttt  TA-rich tract