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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCACAAAGCAGTTTGAGAGATATTCTTTTGCAATGTTGTATGGATGAAGCAGCGGATGTTCGACAGAGTGCTCTCGCCCTCCTGGGGGACCTTTCTAGGgttcgctgcagaccaccaaagtccaccttttattgttttaagttgctttgtagccaataaaaaaaataacaactattcatgtag

Basic information

species Oryza sativa
transcript LOC_Os04g59494.1
intron # 21
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g59494.1 (Oryza sativa), 5'ss of exon 21
lower sequence: GRMZM5G869572_T01 (Zea mays), 5'ss of exon 1
TTCACAAAGCAGTTTGAGAGATATTCTTTTGCAATGTTGTATGGATGAAGCAGCGGATGTTCGACAGAGTGCTCTCGCCCTCCTGGGGGACCTTTCTAGGgttcgctgcagaccaccaaagtccaccttttattgttttaagttgctttgtagccaataaaaaaaat-aacaactattcatgtag---
| |||| |||| |||||||||| | ||||||||||| || |||||||||||||| ||||||||||| ||||| || || || || || |||||||||||||||  ||||| ||||||| ||| ||     |||| | || || |  |||  |    | ||||||||| ||||  | ||  | ||    
TGCACAGAGCAATTTGAGAGATCTACTTTTGCAATGCTGCATGGATGAAGCAGCTGATGTTCGACAAAGTGCCCTTGCACTTCTTGGAGACCTTTCTAGGgttgactgcataccaccatagttca-----tattatcttgagataattttcacattacaaaaaaaattaacactttttgttatactag

upper sequence: LOC_Os04g59494.1 (Oryza sativa), 5'ss of exon 21
lower sequence: GRMZM2G376731_T01 (Zea mays), 5'ss of exon 21
TTCACAAAGCAGTTTGAGAGATATTCTTTTGCAATGTTGTATGGATGAAGCAGCGGATGTTCGACAGAGTGCTCTCGCCCTCCTGGGGGACCTTTCTAGGgttcgctgcagaccaccaaagtccaccttttattgttttaagttgctttgtagccaataaaaaaaataacaactattcatg-tag
| |||| ||||||||||||||| | ||||||||||| || |||||||||||||| ||||||||||| ||||| || ||||| || || |||||||||||||||  ||||| ||||||| ||| ||     |||| |||| |  |  |||  |  | | ||||||||||||   |  |  |  |||
TGCACAGAGCAGTTTGAGAGATCTGCTTTTGCAATGCTGCATGGATGAAGCAGCTGATGTTCGACAAAGTGCCCTTGCCCTTCTTGGAGACCTTTCTAGGgttgactgcataccaccatagttca-----tattattttgacataattttcactctacaaaaaaaataactctttgttgtactag
















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|58608072|gb|CK036105.1|CK036105
EST:     CAGCGGATGTTCGACAGAGTGCTCTCGCCCTCCTGGGGGACCTTTCTAGG                         GTTTGCCCTATACATCTGCATCCCCGCCTTCAAGAATTCCTTAATGTTGCT
genomic: CAGCGGATGTTCGACAGAGTGCTCTCGCCCTCCTGGGGGACCTTTCTAGGgttcgctgca ... attcatgtagGTTTGCCCTATACATCTGCATCCCCGCCTTCAAGAATTCCTTAATGTTGCT
EST: gi|58671684|gb|CK060370.1|CK060370
EST:     CAGCGGATGTTCGACAGAGTGCTCTCGCCCTCCTGGGGGACCTTTCTAGG                         GTTTGCCCTATACATCTGCATCCCCGCCTTCAAGAATTCCTTAATGTTGCT
genomic: CAGCGGATGTTCGACAGAGTGCTCTCGCCCTCCTGGGGGACCTTTCTAGGgttcgctgca ... attcatgtagGTTTGCCCTATACATCTGCATCCCCGCCTTCAAGAATTCCTTAATGTTGCT
EST: gi|29623086|gb|CB628097.1|CB628097
EST:     CAGCGGATGTTCGACAGAGTGCTCTCGCCCTCCTGGGGGACCTTTCTAGG                         GTTTGCCCTATACATCTGCATCCCCGCCTTCAAGAATTCCTTAATGTTGCT
genomic: CAGCGGATGTTCGACAGAGTGCTCTCGCCCTCCTGGGGGACCTTTCTAGGgttcgctgca ... attcatgtagGTTTGCCCTATACATCTGCATCCCCGCCTTCAAGAATTCCTTAATGTTGCT
EST: gi|86850485|gb|CI307714.1|CI307714
EST:     CAGCGGATGTTCGACAGAGTGCTCTCGCCCTCCTGGGGGACCTTTCTAGG                         GTTTGCCCTATACATCTGCATCCCCGCCTTCAAGAATTCCTTAATGTTGCT
genomic: CAGCGGATGTTCGACAGAGTGCTCTCGCCCTCCTGGGGGACCTTTCTAGGgttcgctgca ... attcatgtagGTTTGCCCTATACATCTGCATCCCCGCCTTCAAGAATTCCTTAATGTTGCT
EST: gi|58592654|gb|CF990962.1|CF990962
EST:     CAGCGGATGTTCGACAGAGTGCTCTCGCCCTCCTGGGGGACCTTTCTAGG                         GTTTGCCCTATACATCTGCATCCCCGCCTTCAAGAATTCCTTAATGTTGCT
genomic: CAGCGGATGTTCGACAGAGTGCTCTCGCCCTCCTGGGGGACCTTTCTAGGgttcgctgca ... attcatgtagGTTTGCCCTATACATCTGCATCCCCGCCTTCAAGAATTCCTTAATGTTGCT