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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGAGGTCGGTCCTCCCCGTCGTCCTCCTCGGCTGCGGCGGCGTCGGCCGCCACCTTCTCCGCCACATCGTCTCCTGCCGCCCGCTCCACGCCAACCAGgtacctcgtctcgtctgacccgtccccttcctctccgattcggtgctctcatcgcccatacttgtatag

Basic information

species Oryza sativa
transcript LOC_Os11g03470.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g03470.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G151977_T01 (Zea mays), 5'ss of exon 1
GGTGAGGTCGGTCCTCCCCGTCGTCCTCCTCGGCTGCGGCGGCGTCGGCCGCCACCTTCTCCGCCACATCGTCTCCTGCCGCCCGCTCCACGCCAACCAGgtacctcgtctcgtctgacccgtcccc-----ttcctct--ccgattcggtgctctc--atcgcccatacttgta-tag
 |||| |||||| || ||||| || ||||||||||||||||||||||||||| |||| ||||||||||||||||||||||| || |||||||||||||||||| | |   ||  ||  |||||  ||     | | | |  ||||||||| | || |  |||  |    |      |||
AGTGAAGTCGGTGCTGCCCGTAGTGCTCCTCGGCTGCGGCGGCGTCGGCCGCTACCTCCTCCGCCACATCGTCTCCTGCCGTCCCCTCCACGCCAACCAGgtatcgctcttctccttgcccgtgtccgcgggtacgtatggccgattcggcgatcactgatccactgggccgccggtag

upper sequence: LOC_Os11g03470.1 (Oryza sativa), 5'ss of exon 1
lower sequence: AT5G21060.3 (Arabidopsis thaliana), 5'ss of exon 1
GGTGAGGTCGGTCCTCCCCGTCGTCCTCCTCGGCTGCGGCGGCGTCGGCCGCCACCTTCTCCGCCACATCGTCTCCTGCCGCCCGCTCCACGCCAACCAGgtacctcgtctcgtctgacccgtccccttcctctccgattcggtgctctcatcgcccatacttgtatag--------------------------------
   || |  |    |||| ||  | ||| | |||||||| ||||| |||||||||||||| |  ||||||||||| |||||  |||| ||||||||   ||| | |  |||| |    | |     |||      | |||    | | || ||    ||   || ||                                  
AAGGATGAAGAAGATCCCGGTGCTTCTCATGGGCTGCGGAGGCGTTGGCCGCCACCTTCTTCAACACATCGTCTCTTGCCGATCGCTTCACGCCAAAATGgtccttactctctttctcctcacttacttgtgtctccattgctcgatttc-tcagtaatgaatgaatcctatactaaatgtggtttctgaatcgtcttact
















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|88346916|gb|CI628586.1|CI628586
EST:     GGCACCTTCTCCGCCACATTGTCTCCTGCCGCCCGCTCCACGCCAACCAG                         GGCGTCGCCATCCGGGTGCTCGGCGTCGCCGACAGCTCCTCTCTGCTCGTC
genomic: GCCACCTTCTCCGCCACATCGTCTCCTGCCGCCCGCTCCACGCCAACCAGgtacctcgtc ... acttgtatagGGCGTCGCCATCCGGGTGCTCGGCGTCGCCGACAGCTCCTCTCTGCTCGTC
EST: gi|29685331|gb|CB681606.1|CB681606
EST:     GCCACCTTCTCCGCCACATCGTCTCCTGCCGCCCGCTCCACGCCAACCAG                         GGCGTCGCCATCCGGGTGCTCGGCGTCGCCGACAGCTCCTCTCTGCTCGTC
genomic: GCCACCTTCTCCGCCACATCGTCTCCTGCCGCCCGCTCCACGCCAACCAGgtacctcgtc ... acttgtatagGGCGTCGCCATCCGGGTGCTCGGCGTCGCCGACAGCTCCTCTCTGCTCGTC
EST: gi|88719956|gb|CI745255.1|CI745255
EST:     GCCACCTTCTCCGCCACATCGTCTCCTGCCGCCCGCTCCACGCCAACCAG                         GGCGTCGCCATCCGGGTGCTCGGCGTCGCCGACAGCTCCTCTCTGCTCGTC
genomic: GCCACCTTCTCCGCCACATCGTCTCCTGCCGCCCGCTCCACGCCAACCAGgtacctcgtc ... acttgtatagGGCGTCGCCATCCGGGTGCTCGGCGTCGCCGACAGCTCCTCTCTGCTCGTC
EST: gi|88362531|gb|CI623871.1|CI623871
EST:     GCCACCTTCTCCGCCACATCGTCTCCTGCCGCCCGCTCCACGCCAACCAG                         GGCGTCGCCAT-CGGGTGCTCGGCGTCGCCGACAGCTCCTCTCTGCTCGTC
genomic: GCCACCTTCTCCGCCACATCGTCTCCTGCCGCCCGCTCCACGCCAACCAGgtacctcgtc ... acttgtatagGGCGTCGCCATCCGGGTGCTCGGCGTCGCCGACAGCTCCTCTCTGCTCGTC
EST: gi|88363078|gb|CI616235.1|CI616235
EST:     GCCACCTTCTCCGCCACATCGTCTCCTGCCGCCCGCTCCACGCCAACCAG                         GGCGTCGCCATCCGGGTGCTCGGCGTCGCCGACAGCTCCTCTCTGCTCGTC
genomic: GCCACCTTCTCCGCCACATCGTCTCCTGCCGCCCGCTCCACGCCAACCAGgtacctcgtc ... acttgtatagGGCGTCGCCATCCGGGTGCTCGGCGTCGCCGACAGCTCCTCTCTGCTCGTC
EST: gi|88376986|gb|CI597770.1|CI597770
EST:     GCCAACTTCTCCGCCACATCGTCTCCTGCCGCCCGCTCCACGCCAACCAG                         GGCGTCGCCATACGGGTGCTCGGCGTCGCCGACAGCTCCTCTCTGCTCGTC
genomic: GCCACCTTCTCCGCCACATCGTCTCCTGCCGCCCGCTCCACGCCAACCAGgtacctcgtc ... acttgtatagGGCGTCGCCATCCGGGTGCTCGGCGTCGCCGACAGCTCCTCTCTGCTCGTC
EST: gi|88721484|gb|CI744783.1|CI744783
EST:     GCCACCTTCTCCGCCACATCGTCTCCTGCCGCCCGCTCCACGCCAACCAG                         GGCGTCGCCATCCGGGTGCTCGGCGTCGCCGACAGCTCCTCTCTGCTCGTC
genomic: GCCACCTTCTCCGCCACATCGTCTCCTGCCGCCCGCTCCACGCCAACCAGgtacctcgtc ... acttgtatagGGCGTCGCCATCCGGGTGCTCGGCGTCGCCGACAGCTCCTCTCTGCTCGTC