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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtatactgtttaatttgctcgtaattcttcagacttatgcgttgtttcacttccaagccgttctcatttcgaagtgattatcactgcatgatttctccagGAGCATCAAGTGAGGACGAGATGCGGTTCATTATCCGTCGCGATATACGGAGACGAGGACAAGCCGGCGCTCATCACGTACCCGGACATCGCGTTGAACC

Basic information

species Oryza sativa
transcript LOC_Os05g10740.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g10740.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM5G813363_T01 (Zea mays), 3'ss of exon 1
gtatactgtttaatttgctcgtaattcttcagacttatgcgttgtttcacttccaa-gccgttctcatttcgaagtgattatcactgcatgat-ttctccagGAGCATCAAGTGAGGACGAGATGCGGTTCATTATCCGTCGCGATATACGGAGACGAGGACAAGCCGGCGCTCATCACGTACCCGGACATCGCGTTGAACC
||   ||  ||  |||    ||  |||||      |  | || |  ||| | ||   |   |      |   | |||| ||    | | |  | ||| |||||| ||||  |||||||||||||| |||||  || |||| ||  | |||||||||||||||||||| ||||| || |||||||||||  | ||  ||||| 
gttctctcatttttttttctgttcttctttttggcttggtgtgg--tcagtgccgctgaaatagctgctaaaaggtgactactttttcttcttcttccccagGATCATCTTGTGAGGACGAGATGTGGTTCTGTAACCGTTGCCGTGTACGGAGACGAGGACAAGCCAGCGCTTATAACGTACCCGGATGTAGCTCTGAACT

upper sequence: LOC_Os05g10740.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G100102_T01 (Zea mays), 3'ss of exon 2
gtatactgtttaatttgctcgtaattcttcagactta-tgcgtt--gtttcacttccaa-gccgttctcatttcgaagtgattatcactgcatgat-ttctccagGAGCATCAAGTGAGGACGAGATGCGGTTCATTATCCGTCGCGATATACGGAGACGAGGACAAGCCGGCGCTCATCACGTACCCGGACATCGCGTTGAACC
     || | |  ||| ||  |  |  ||  | |||  || | |  ||  |  | |    |   |      |   | |||| ||    | | |  | ||| |||||| ||||  |||||||||||||| |||||  |  | || ||  | |||||||||||||||||||| ||||| || |||||||||||  | ||  ||||| 
-----ctctctttttttctattcttctttttggcttggtgtggtcagtgccggtgctgctgaaatagctgctaaaaggtgactactttttcttcttcttccccagGAACATCTTGTGAGGACGAGATGTGGTTCTGTGACTGTTGCCGTGTACGGAGACGAGGACAAGCCAGCGCTTATAACGTACCCGGATGTAGCTCTGAACT
















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|29643622|gb|CB648629.1|CB648629
EST:     GTTCCGGGTCTGTGTCGGTGGACGTCGAGCGGATTTCCTTCGGCGGCAAG                         GAGCATCAAGTGAGGACGAGATGCGGTTCATTATCCGTCGCGATATACGGA
genomic: GTTCCGGGTCTGTGTCGGTGGACGTCGAGCGGATTTCCTTCGGCGGCAAGgtctgtccgt ... atttctccagGAGCATCAAGTGAGGACGAGATGCGGTTCATTATCCGTCGCGATATACGGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcacttccaagccgttctcatttcgaagtgattatcactgcatgatttctccagGAGCATCAAGTGAGGACGAGATGCGGTTCATTATCCGTCGCGATATACGGAGACGAGGACAAGCCGGCGCTCATCACGTACCCGGACATCGCGTTGAACC
                                              tttctcc  CT-rich tract
                             tgattat  TA-rich tract