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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCAAGACAACTAGCCCAAAGAAGTACTGCGTCAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCGgttatgctcaattctcatctccttcatgcaaaacgttgggatattttcctcgtcctgttatctgtgtgcaaaaaattgacagttctctgcatttccttag

Basic information

species Oryza sativa
transcript LOC_Os04g45190.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g45190.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G155543_T01 (Zea mays), 5'ss of exon 3
GTCAAGACAACTAGCCCAAAGAAGTACTGCGTCAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCGgttatgct-------caattctcatctccttcatgcaaaacgt-tgggatattttcctcgtcctgttatctgt-gtgcaaaaaattgacagttctctgcatttccttag
|| ||||| || ||||| ||||||||||| ||| |||| ||||| ||||| ||||| || |||||||||||||||||||| ||| || |        |||  |||| |||||||   | ||     |  || ||   | ||  |  | |  || |  | ||||    |||| |  || |||| || || ||
GTTAAGACGACGAGCCCGAAGAAGTACTGTGTCCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaacagaccaacactcacctccttccctccaagttcatttgacatgggcgtccccaagattactatcattcaaatgcctgac-gccctttgcaatttctcag

upper sequence: LOC_Os04g45190.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G155543_T04 (Zea mays), 5'ss of exon 2
------------------GTCAAGACAACTAGCCCAAAGAAGTACTGCGTCAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCGgttatgct-------caattctcatctccttcatgcaaaacgt-tgggatattttcctcgtcctgttatctgt-gtgcaaaaaattgacagttctctgcatttccttag
                  || ||||| || ||||| ||||||||||| ||| |||| ||||| ||||| ||||| || |||||||||||||||||||| ||| || |        |||  |||| |||||||   | ||     |  || ||   | ||  |  | |  || |  | ||||    |||| |  || |||| || || ||
TGATTTTGAGTCCGACAGGTTAAGACGACGAGCCCGAAGAAGTACTGTGTCCGGCCCAACAGCGGCATCGTGCCACCTCGGTCCACCAGCGATGTCATTGgtaattccaacagaccaacactcacctccttccctccaagttcatttgacatgggcgtccccaagattactatcattcaaatgcctgac-gccctttgcaatttctcag
















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|163928274|gb|EG714654.1|EG714654
EST:     CAGTCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCG                         TAACAATGCAAGCCCAACGGGAGGCAC
genomic: CAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCGgttatgctca ... atttccttagTAACAATGCAAGCCCAACGGGAGGCAC
EST: gi|27547307|gb|CA765509.2|CA765509
EST:     CAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCG                         TAACAATGCAAGCCCAACGGGAGGCACCAGCAGACATGCAGTGCAAAGACA
genomic: CAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCGgttatgctca ... atttccttagTAACAATGCAAGCCCAACGGGAGGCACCAGCAGACATGCAGTGCAAAGACA
EST: gi|428790|gb|D24946.1|D24946
EST:     CAGGNCGAACAGTGGCATTGTGCCGCCACGGTNCACCAGCGATGTCATCG                         TAACAATGCAAG
genomic: CAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCGgttatgctca ... atttccttagTAACAATGCAAG
EST: gi|117238779|gb|CT842528.1|CT842528
EST:     CAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCG                         TAACAATGCAAGCCCAACGGGAGGCACCAGCAGACATGCAGTGCAAAGACA
genomic: CAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCGgttatgctca ... atttccttagTAACAATGCAAGCCCAACGGGAGGCACCAGCAGACATGCAGTGCAAAGACA
EST: gi|88317555|gb|CI672132.1|CI672132
EST:     CAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCG                         TAANAATGCAAGCCCAACGGGAGGCACCAGCAGACATGCAGTGCAAAGACA
genomic: CAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCGgttatgctca ... atttccttagTAACAATGCAAGCCCAACGGGAGGCACCAGCAGACATGCAGTGCAAAGACA
EST: gi|88330878|gb|CI636890.1|CI636890
EST:     CAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCG                         TAACAATGCAAGCCCAACGGGAGGCACCAGCAGACATGCAGTGCAAAGACA
genomic: CAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCGgttatgctca ... atttccttagTAACAATGCAAGCCCAACGGGAGGCACCAGCAGACATGCAGTGCAAAGACA
EST: gi|58606663|gb|CK034696.1|CK034696
EST:     CAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCG                         TAACAATGCAAGCCCAACGGGAGGCACCAGCAGACATGCAGTGCAAAGACA
genomic: CAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCGgttatgctca ... atttccttagTAACAATGCAAGCCCAACGGGAGGCACCAGCAGACATGCAGTGCAAAGACA
EST: gi|163929427|gb|EG713396.1|EG713396
EST:     CAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCG                         TAACAATGCAAGCCCAACGGGAGGCACCAGCAGACATGCAGTGCAAAGACA
genomic: CAGGCCGAACAGTGGCATTGTGCCGCCACGGTCCACCAGCGATGTCATCGgttatgctca ... atttccttagTAACAATGCAAGCCCAACGGGAGGCACCAGCAGACATGCAGTGCAAAGACA