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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATCGCTTAAAGAAACTTAAATCAGAACATGGGAAGGTCCAGCTTGGAAACATAACTGTTGATATGgtatgattctgctatcgattatttatggataaatctattgctattgctttttaagggtgtccttaattgattgggctaaagtcttgaattgtgtttctccag

Basic information

species Oryza sativa
transcript LOC_Os11g33240.3
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g33240.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G064023_T04 (Zea mays), 5'ss of exon 5
GATCGCTTAAAGAAACTTAAATCAGAACATGGGAAGGTCCAGCTTGGAAACATAACTGTTGATATGgtatgattctgctatcgattatttatggataaatctattgctattgctttttaagggtgtcc-ttaattgattgggctaaagtcttgaattgtgtttctccag
|||||| ||||||| ||||||||||| ||||||||||| |||||||||||||||||||| |||||||||| ||  | ||    |||| ||    ||  ||  | |  | ||||||||  || |  |   |||| | ||   |  ||| || | |||  |||| || |||
GATCGCCTAAAGAAGCTTAAATCAGAGCATGGGAAGGTTCAGCTTGGAAACATAACTGTGGATATGgtataata-tactgcttattagttgcctatggat--agttatgttgcttttctagagcatatattaactcatcatgtgaaaatccttaataatgttcctgcag

upper sequence: LOC_Os11g33240.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G063851_T02 (Zea mays), 5'ss of exon 5
GATCGCTTAAAGAAACTTAAATCAGAACATGGGAAGGTCCAGCTTGGAAACATAACTGTTGATATGgtatgat---tctgctatcgattatttatggataaatctattgctattgctttttaagggtgtccttaattgattgggctaaagtcttgaattgtgtttctccag
|||||||||||||| || || ||||| ||||| |||  ||||||||||||||||||||| |||||||||||||   |    |||| ||| | ||||||||  | | |||||      |||  ||  | | || || | ||   |  ||| || |||||  |||| ||||||
GATCGCTTAAAGAAGCTCAAGTCAGAGCATGGAAAGACCCAGCTTGGAAACATAACTGTGGATATGgtatgatatattgcttatcaattgtctatggatagttttgttgct------tttatagcatatact-aacttatcctgggaaattcctgaatgatgttcctccag

upper sequence: LOC_Os11g33240.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G063909_T03 (Zea mays), 5'ss of exon 4
GATCGCTTAAAGAAACTTAAATCAGAACATGGGAAGGTCCAGCTTGGAAACATAACTGTTGATATGgtatgattctgctatcgattatttatggataaatctattgct--attgctttttaagggt---gtccttaattgattgggctaaagtcttgaattgtgtttctccag
|| ||||||||||| ||||||||||| ||||||||||| |||||||||||||||||||| |||||||||| ||  | ||    || | ||    ||| || ||| |||   | ||||||  ||| |   || ||| | | ||    ||  ||                     
GACCGCTTAAAGAAGCTTAAATCAGAGCATGGGAAGGTTCAGCTTGGAAACATAACTGTGGATATGgtataata-tactgcttatcaattgcctatatatgtatagctttgtcgcttttctaggataatgttcttgaataatgttcctgcag---------------------

upper sequence: LOC_Os11g33240.3 (Oryza sativa), 5'ss of exon 4
lower sequence: AT2G44350.2 (Arabidopsis thaliana), 5'ss of exon 5
GATCGCTTAAAGAAACTTAAATCAGAACATGGGAAGGTCCAGCTTGGAAACATAACTGTTGATATGgtatgattctgctatcgattatttatggataaatctattgctattgctttttaagggtgtc-cttaattgattgggctaaagtcttgaattgtgtttctccag
|| ||  | |||||||| || |||||||||||||||||||| || |||||||| ||||||||||||||| ||  |    || |||| |       |   | | ||  |||   |||         |  | ||| | ||     |    | |  |||   |         
GACCGTCTGAAGAAACTGAAGTCAGAACATGGGAAGGTCCAACTGGGAAACATCACTGTTGATATGgta-gaaacaatcat-gattttcacgtttttggtttgtttatatgattttcaccttccattgcataactcatcataatcccctttgaaataaag---------

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|86904765|gb|CI310558.1|CI310558
EST:     TTAAATCAGAACATGGGAAGGTCCAGCTTGGAAACATAACTGTTGATATG                         GTCCTTGGCGGGATGAGAGGAATGATTGGAATGCTTTGGGAAACATCATTG
genomic: TTAAATCAGAACATGGGAAGGTCCAGCTTGGAAACATAACTGTTGATATGgtatgattct ... gtttctccagGTCCTTGGCGGGATGAGAGGAATGATTGGAATGCTTTGGGAAACATCATTG