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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCGGCGACCCGGAGCTGATCCGCAGGTCGCAGCGCAACCGCTCCGCCTCCGTCGAGCTCGTCGACGAGGTCATCGCCCTCGACGACCAGTGGCGCCAGAgtaagagagagggggcttctcactcacccgggcgggatcgaaccccttgcgaatccgccgtcccttccctgaccactagttatgcttgttcgccgcag

Basic information

species Oryza sativa
transcript LOC_Os01g37837.3
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g37837.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G124439_T01 (Zea mays), 5'ss of exon 1
GGCGGCGACCCGGAGCTGATCCGCAGGTCGCAGCGCAACCGCTCCGCCTCCGTCGAGCTCGTCGACGAGGTCATCGCCCTCGACGACCAGTGGCGCCAGAgtaagagagagggggcttctcactcacccgggcgggatcgaaccccttgcgaatccgccgtcccttccctgaccactagttatgcttgttcgccgcag
|||| | |||| || || || |||  ||| ||||| |  || | |||||||||||||||||||||||||||||||||||||||| |    |||||| | |||||| |        || |||  | |||| | |     | | | |||| |     | | | |   || |||||    ||   | ||  |  || ||||
GGCGACAACCCAGACCTTATTCGCGAGTCCCAGCGTAGTCGGTTCGCCTCCGTCGAGCTCGTCGACGAGGTCATCGCCCTCGACAAGGCATGGCGCGAAAgtaagtgtccac--tctcctcg-ttaccctgcc----cccatctccttcc----tcacaggctggtctctgactctgaggcgtcctcat--gctgcag

upper sequence: LOC_Os01g37837.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G355297_T01 (Zea mays), 5'ss of exon 1
GGCGGCGACCCGGAGCTGATCCGCAGGTCGCAGCGCAACCGCTCCGCCTCCGTCGAGCTCGTCGACGAGGTCATCGCCCTCGACGACCAGTGGCGCCAGAgtaagagagagggggcttctcactcacccgggcgggatcgaaccccttgcgaatccgccgtcccttccctgaccactagttatgcttgttcgccgcag
|||||| |||| || || || ||   ||| |||||||  |  | |||||||||||||||||| ||||||||||||||||||||| |    |||||| | |||||| |        || |||  | |||| | |     |   | |||| |     | | | |   || || ||    ||   | ||  |  || ||||
GGCGGCAACCCTGACCTTATTCGTGAGTCCCAGCGCAGTCAGTTCGCCTCCGTCGAGCTCGTTGACGAGGTCATCGCCCTCGACAAGGCATGGCGCGAAAgtaagtgtccac--tctcctcg-ttaccctgcc----cctgtctccttcc----tcacaggctggtctctaactctgaggcgtcctcat--gctgcag

upper sequence: LOC_Os01g37837.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G014367_T01 (Zea mays), 5'ss of exon 1
GGCGGCGACCCGGAGCTGATCCGCAGGTCGCAGCGCAACCGCTCCGCCTCCGTCGAGCTCGTCGACGAGGTCATCGCCCTCGACGACCAGTGGCGCCAGAgtaagagagagggggcttctcactcacccgggcgggatcgaaccccttgcgaatccgccgtcccttccctgaccactagttatgcttgttcgccgcag
|||||| ||||||| || || | |  ||| ||| |||  || | |||||||||||||||||||||||||||||||||||||||| |    |||||| | |||||| |        || |||  | |||| | |     |   | |||| |     | | | |   || |||||    ||   | ||  |  || ||||
GGCGGCAACCCGGACCTTATTCACGAGTCCCAGTGCAGTCGGTTCGCCTCCGTCGAGCTCGTCGACGAGGTCATCGCCCTCGACAAGGCATGGCGCGAAAgtaagtgtccac--tctcctcg-ttaccctgcc----cccgtctccttcc----tcacaggctggtctctgactctgaggcgtcctcat--gctgcag

upper sequence: LOC_Os01g37837.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G172101_T01 (Zea mays), 5'ss of exon 1
GGCGGCGACCCGGAGCTGATCCGCAGGTCGCAGCGCAACCGCTCCGCCTCCGTCGAGCTCGTCGACGAGGTCATCGCCCTCGACGACCAGTGGCGCCAGAgtaagagagagggggcttc-tcactc--acccgggcggga-----tcgaaccccttgcgaatccgccgtcccttccctgaccactagttatgcttgtt--cgccgcag
|||||| |||||||||| || ||   ||| ||||||| ||| | |||||||||||||||||||||||||||||||||||||||| |    |||||| | |||||| |        | || | || |   |||  ||         || |||  ||| |  |||  |||  |  || |||||    |||  | |  ||    || ||||
GGCGGCAACCCGGAGCTTATTCGTGAGTCCCAGCGCAGCCGGTTCGCCTCCGTCGAGCTCGTCGACGAGGTCATCGCCCTCGACAAGGCATGGCGCGAAAgtaagtgtccactcccctcattaccctggcccccgcccccctccctcaaacgtcttccagatc--ccggtcggtctctgactctcagtggttcgcgtcgctgctgcag

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|29633861|gb|CB638870.1|CB638870
EST:     CGTCGAGCTCGTCGACGAGGTCATCGCCCTCGACGACCAGTGGCGCCAGA                         GGCAATTCGAGCTCGACAAAATCCGGCAGGAGCTCAACAAAACCAGCAAGG
genomic: CGTCGAGCTCGTCGACGAGGTCATCGCCCTCGACGACCAGTGGCGCCAGAgtaagagaga ... ttcgccgcagGGCAATTCGAGCTCGACAAAATCCGGCAGGAGCTCAACAAAACCAGCAAGG