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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttccgaactattatgtacgggcattttgtcttcctgatgtactgctatgttcaagttttctgaatttatttcctttttttttttttttgaagATTGCTCCTATGCATGTTAAAAATGTCCGTGAGGTTCCTGAGTACGAGATTTCCCCGAACGAGCTAGATTTCACTAATGGAAATGGTATATCAAAG

Basic information

species Oryza sativa
transcript LOC_Os01g54480.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g54480.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G045366_T01 (Zea mays), 3'ss of exon 2
gtacttccgaactattatgtacgggcattttgtcttcctgatgtactgctatgttcaagttttctgaatttatttcctttttttttttttttgaagATTGCTCCTATGCATGTTAAAAATGTCCGTGAGGTTCCTGAGTACGAGATTTCCCCGAACGAGCTAGATTTCACTAATGGAAATGGTATATCAAAG
        | ||||  ||||||| |  |    ||| ||||||||  || | |||||| || |||||||| |        |   || ||| |||||||||||||| |||||||| || ||||| ||||| |||||||| || ||||||  ||||   ||||| ||||||| |||||| |||| | |||| |||
--------gtactaagatgtacgtgtgtcgcctctgcctgatgttttgttttgttcaggtgttctgaatat--------tcgcttctttcttgaagATTGCTCCGATGCATGTGAACAATGTTCGTGAAGTTCCTGAATATGAGATTGACCCGGCTGAGCTTGATTTCAGTAATGGCAATGATTTATCCAAG
















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|117235877|gb|CT847833.1|CT847833
EST:     AGAACCATGATGTGATCAAGATCTTGGAAAAGCATGGCTCCAAGCTTAAG                         ATTGCTCCTATGCATGTTAAAAATGTCCGTGAGGTTCCTGAGTACGAGATT
genomic: AGAACCATGATGTGATCAAGATCTTGGAAAAGCATGGCTCCAAGCTTAAGgtacttccga ... ttttttgaagATTGCTCCTATGCATGTTAAAAATGTCCGTGAGGTTCCTGAGTACGAGATT
EST: gi|29633163|gb|CB638172.1|CB638172
EST:     AGAACCATGATGTGATCAAGATCTTGGAAAAGCATGGCTCCAAGCTTAAG                         ATTGCTCCTATGCATGTTAAAAATGTCCGTGAGGTTCCTGAGTACG
genomic: AGAACCATGATGTGATCAAGATCTTGGAAAAGCATGGCTCCAAGCTTAAGgtacttccga ... ttttttgaagATTGCTCCTATGCATGTTAAAAATGTCCGTGAGGTTCCTGAGTACG
EST: gi|29678487|gb|CB674762.1|CB674762
EST:     AGAACCATGATGTGATCAAGATCTTGGAAAAGCATGGCTCCAAGCTTAAG                         ATTGCTCCTATGCATGTTAAAAATGTCCGTGAGGTTCCTGAGTACGAGATT
genomic: AGAACCATGATGTGATCAAGATCTTGGAAAAGCATGGCTCCAAGCTTAAGgtacttccga ... ttttttgaagATTGCTCCTATGCATGTTAAAAATGTCCGTGAGGTTCCTGAGTACGAGATT
EST: gi|58694022|gb|CK082709.1|CK082709
EST:     AGAACCATGATGTGATCAAGATCTTGGAAAAGCATGGCTCCAAGCTTAAG                         ATTGCTCCTATGCATGTTAAAAATGTCCGTGAGGTTCCTGAGTACGAGATT
genomic: AGAACCATGATGTGATCAAGATCTTGGAAAAGCATGGCTCCAAGCTTAAGgtacttccga ... ttttttgaagATTGCTCCTATGCATGTTAAAAATGTCCGTGAGGTTCCTGAGTACGAGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtactgctatgttcaagttttctgaatttatttcctttttttttttttttgaagATTGCTCCTATGCATGTTAAAAATGTCCGTGAGGTTCCTGAGTACGAGATTTCCCCGAACGAGCTAGATTTCACTAATGGAAATGGTATATCAAAG
                  ttttctgaatttattt  CT-rich tract
               aagttttctgaattta  TA-rich tract