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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtaacttataaagttgttgaatctccttcaatcttattggaaccacattttctaagagtataagtccattgttcttcacttttcagCATAGCACTTGCTGGTCTTGTGACGGTTCTGCATGCCTGTCTTGACATGAAATCCATCATTCTGGGGAAGTACCATTACATGCTTTATATCCTTACCCTA

Basic information

species Oryza sativa
transcript LOC_Os06g48640.2
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g48640.2 (Oryza sativa), 3'ss of exon 22
lower sequence: AT2G20580.1 (Arabidopsis thaliana), 3'ss of exon 20
gtgagtaacttataaagttgttgaatctccttcaatcttattgga--accacattttctaagagtataagtccattgttcttcacttttcagCATAGCACTTGCTGGTCTTGTGACGGTTCTGCATGCCTGTCTTGACATGAAATCCATCATTCTGGGGAAGTACCATTACATGCTTTATATCCTTACCCTA
|| |||   || |     |    |||       |||||| || ||       || ||| |||  |     | |   |  |||   | | ||| |  |||||||||||| | |||||  || ||||||| || |||||||||||| | ||||| || ||||||||||||||  |||| ||  ||||     | 
gtaagttcattctttttgtcaccaatagaaccaaatcttttttgatagttggatgttcaaaggtttctcatgcg--gaccttatttatgcagAACCGCACTTGCTGGTATAGTGACACTTTTGCATGCATGCCTTGACATGAAACCAATCATACTCGGGAAGTACCATTATGTGCTGTACTTCCTCGTTTTG

upper sequence: LOC_Os06g48640.2 (Oryza sativa), 3'ss of exon 22
lower sequence: AT4G28470.1 (Arabidopsis thaliana), 3'ss of exon 20
gtgagtaacttataaagt-tgttgaatctccttcaatcttattggaaccacattttctaagagtataagtccattgttcttcacttttc--agCATAGCACTTGCTGGTCTTGTGACGGTTCTGCATGCCTGTCTTGACATGAAATCCATCATTCTGGGGAAGTACCATTACATGCTTTATATCCTTACCCTA
    |||| ||||||  | | ||  || |  | |  |  | |   | |  ||  || | |      || |    |||| |    | | |  || |  |||||||||||| | |||||  |  ||||||| || ||||||||||||||||| || |||||||| || || ||  |||| ||  |||||    | 
----gtaagttataacatatattttatgta-tactttgctttcaaagctccaccttgtgaatcctaaacttgggtgttgtattttgtacctagAACCGCACTTGCTGGTATAGTGACATTGTTGCATGCATGCCTTGACATGAAATCCATTATACTGGGGAAATATCACTATGTGCTCTACTTCCTTGTTTTG
















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|29614662|gb|CB619675.1|CB619675
EST:     GGTTTGCTGACCCTTTCGCCATATCACTCTGACCGGTTCCTTCTGTCCCC                         CATAGCACTTGCTGGTCTTGTGACGGTTCTGCATGCCTGTCTTGACATGAA
genomic: GGTTTGCTGACCCTTTCACCATATCACTCTGACCGGTTCCTTCTGTCCCCgtgagtaact ... cacttttcagCATAGCACTTGCTGGTCTTGTGACGGTTCTGCATGCCTGTCTTGACATGAA
EST: gi|58590730|gb|CF989038.1|CF989038
EST:     GGTTTGCTGACCCTTTCGCCATATCACTCTGACCGGTTCCTTCTGTCCCC                         CATAGCACTTGCTGGTCTTGTGACGGTTCTGCATGCCTGTCTTGACATGAA
genomic: GGTTTGCTGACCCTTTCACCATATCACTCTGACCGGTTCCTTCTGTCCCCgtgagtaact ... cacttttcagCATAGCACTTGCTGGTCTTGTGACGGTTCTGCATGCCTGTCTTGACATGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttattggaaccacattttctaagagtataagtccattgttcttcacttttcagCATAGCACTTGCTGGTCTTGTGACGGTTCTGCATGCCTGTCTTGACATGAAATCCATCATTCTGGGGAAGTACCATTACATGCTTTATATCCTTACCCTA
                                     ttgttcttcacttttc  CT-rich tract
               attttctaa  TA-rich tract