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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCCCAAGACCTTCGAGGTGAAGCCCGGCCAGTCCGACGACATCGTCACCGCCTCCCTCGCCATTCCCTTCCGCCTCGGCACCGGCGTCTTCGCCCTTGGgtactttattttctatttctactgaatttattcgatccaatacctactgaattttgtttctaaatcttattgttactcgattcatatattcatggccttggattcatttgatgtgcag

Basic information

species Oryza sativa
transcript LOC_Os08g44400.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g44400.3 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM5G804772_T03 (Zea mays), 5'ss of exon 1
AGCCCAAGACCTTCGAGGTGAAGCCCGGCCAGTCCGACGACATCGTCACCGCCTCCCTCGCCATTCCCTTCCGCCTCGGCACCGGCGTCTTCGCCCTTGGgtactttattttctatttctactgaatttattcgatccaatacctactgaattttgtttctaaat-cttattgttactcgattcatatattcatggccttggattcatttgatgtgcag
|||||||||  | |||||| ||| ||||||||   | |  | || ||  |||||| |||||||| ||| | |||||||||||||||||||||| ||| ||||||        |  | |||               | |    ||||| |  |   |  |  |  | ||||     ||  |   | |  ||     |                       
AGCCCAAGAGGTACGAGGTCAAGTCCGGCCAGGTGGGCAGCGTCCTCGGCGCCTCGCTCGCCATCCCCCTTCGCCTCGGCACCGGCGTCTTCGTCCTCGGgtacgcaccgcgccttctctcaccgtccgggcgtctacctcgcctacgggctacagcctgcacctgcttacctgcacgtgtcacttcaatgtgcag-----------------------

upper sequence: LOC_Os08g44400.3 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G085000_T04 (Zea mays), 5'ss of exon 1
AGCCCAAGACCTTCGAGGTGAAGCCCGGCCAGTCCGACGACATCGTCACCGCCTCCCTCGCCATTCCCTTCCGCCTCGGCACCGGCGTCTTCGCCCTTGGgtactttattttctatttctactgaatttattcgatccaatacctactgaattttgtttctaaatcttattgttactcgattcatatattcatggccttggattcatttgatgtgcag
|||||||||  |||||| | ||| ||||||||     |    || ||  ||| |  |||||||| ||| |||||||||||||||||||||||| ||| ||||||        |     || ||      || ||  |   ||| |  |  |      | |     || |     ||  |   |||  ||     |                       
AGCCCAAGAGGTTCGAGATCAAGTCCGGCCAGCAGAGCAGTGTCCTCGGCGCTTTGCTCGCCATCCCCCTCCGCCTCGGCACCGGCGTCTTCGTCCTCGGgtacgcaccgcgccgcgccttctctcaccatccgcgcgtctacgtcgtctacaactctacacctgctgacctgcacgtgtcacatcgatgtgcag-----------------------

upper sequence: LOC_Os08g44400.3 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G022866_T01 (Zea mays), 5'ss of exon 1
AGCCCAAGACCTTCGAGGTGAAGCCCGGCCAGTCCGACGACATCGTCACCGCCTCCCTCGCCATTCCCTTCCGCCTCGGCACCGGCGTCTTCGCCCTTGGgtactttattttctatttctactgaatttattcgatccaatacctactgaattttgtttctaaat-cttattgttactcgattcatatattcatggccttggattcatttgatgtgcag
|||||||||  |||||||| ||| ||||||||   | |  | || ||  |||||| |||||||| ||| |||||||||||||||||||||||| ||| ||||||        |  | |||               | |    ||||| |  |   |  |  |  | ||||     ||  |   | |  ||     |                       
AGCCCAAGAGGTTCGAGGTCAAGTCCGGCCAGCTGGGCAGCGTCCTCGGCGCCTCGCTCGCCATCCCCCTCCGCCTCGGCACCGGCGTCTTCGTCCTCGGgtacgcaccgcgccttctctcaccgtccgggcgtctacctcgcctacgggctacagcctgcacctgcttacctgcacgtgtcacttcaatgtgcag-----------------------

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|58590549|gb|CF988857.1|CF988857
EST:     GCCTCCCTCGCCATTCCCTTCCG-C-CGG--GCGGCGTCTTCGCCCTTGG                         ATATTCGGTATCGCTGGTTTCTCCTGACGAGGTGGCACCAGATGAATATGC
genomic: GCCTCCCTCGCCATTCCCTTCCGCCTCGGCACCGGCGTCTTCGCCCTTGGgtactttatt ... tgatgtgcagATATTCGGTATCGCTGGTTTCTCCTGACGAGGTGGCACCAGATGAATATGC