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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACCTGGGCGTGAGTAATGGTAACATGCAGGAAGGTTCCCTTCGCTGTGATGTGAATGTTTCTGTTCGGCCAATTGGACAATCAAATTTTGGTACAAAGgtaatcatgagagctttagaacttccctagctgactgctatgctatgttcacatgttgctatcgatttcataattttatcatccaccagtgcaaaaactt...

Basic information

species Oryza sativa
transcript LOC_Os11g34210.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g34210.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G091560_T01 (Zea mays), 5'ss of exon 2
GTACCTGGGCGTGAGTAATGGTAACATGCAGGAAGGTTCCCTTCGCTGTGATGTGAATGTTTCTGTTCGGCCAATTGGACAATCAAATTTTGGTACAAAGgtaatcatgagagctttagaacttccc-tagctgactgctatgctatgttcacatgttgctatcgatttcataattttatcatccaccagtgcaaaaactt-
||||||||| |||||||||||||| ||||| |||||||||||||| ||||||||||| ||||||||||| ||| ||||||||||| | |||||||||||||| ||  |   | |||||| | |||   || |||  || ||| ||  |||    |||   | |   | |     | ||  || |      |   |  | |  
GTACCTGGGAGTGAGTAATGGTAATATGCAAGAAGGTTCCCTTCGTTGTGATGTGAACGTTTCTGTTCGACCAGTTGGACAATCAGAATTTGGTACAAAGgtgattctcctatctttaggagttctgataactgtttgttattct--gtttgtgtgtgtgtgtgtgtgtgtgtgtgttggcaacttttgctctcagtattat

upper sequence: LOC_Os11g34210.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv05s0049g02140.t01 (Vitis vinifera), 5'ss of exon 3
GTACCTGGGCGTGAGTAATGGTAACATGCAGGAAGGTTCCCTTCGCTGTGATGTGAATGTTTCTGTTCGGCCAATTGGACAATCAAATTTTGGTACAAAGgtaatc----atgagagctttagaacttccctagctgactgctatgctatgttcacatgttgctatcgatttcataattttatcatccaccagtgcaaaaactt
 ||  |||| |||||||||||||| ||||| |||||||| |||||||||||||| ||||| || ||| | |||||||| ||   | | ||||| ||||||||| |     ||   |    | || |||       | |     ||      |  | |   |||  || |||   |||  | |  ||    ||            
TTATTTGGGGGTGAGTAATGGTAATATGCAAGAAGGTTCACTTCGCTGTGATGTCAATGTCTCAGTTAGACCAATTGGGCAGCTAGAGTTTGGCACAAAGgtagtttataatctaattacttgatctttgtactttcaaaaaaatatatgatgaataatgtgcactctattgtctaacataaaaattggtcaacatgggg----

upper sequence: LOC_Os11g34210.1 (Oryza sativa), 5'ss of exon 3
lower sequence: EFJ26002 (Selaginella moellendorffii), 5'ss of exon 2
GTACCTGGGCGTGAGTAATGGTAACATGCAGGAAGGTTCCCTTCGCTGTGATGTGAATGTTTCTGTTCGGCCAATTGGACAATCAAATTTTGGTACAAAGgtaatcatgagagctttagaacttccctagctgactgctatgctatgttcacatgttgctatcgatttcataattttatcatccaccagtgcaaaaactt
||  || ||| |  | | ||| | ||||   || || || ||||||||||||||||||||||||||  | || |  || ||  ||   ||||| || |||||              | ||  |  ||| | ||  || | |  |  ||  |  | ||| |  | | ||  || |||  | |                   
GTGTCTCGGCATTGGAAGTGGAAGCATGGCCGAGGGATCGCTTCGCTGTGATGTGAATGTTTCTGTGAGACCCAGAGGCCAGGCAGCCTTTGGCACCAAGgt--------------ttgatatcgcctcgttgtttggtgt-ttgagtggaagttttgatggctagtt-gtagtttcttgacag----------------

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|33797712|gb|CF324715.1|CF324715
EST:     ATGTGAATGTTTCTGTTCGGCCAATTGGACAATCAAATTTTGGTACAAAG                         GTTGAAATAAAGAATATGAATTCATTTTCTGCAATAAGTAGGGCAATAGAT
genomic: ATGTGAATGTTTCTGTTCGGCCAATTGGACAATCAAATTTTGGTACAAAGgtaatcatga ... tggctgccagGTTGAAATAAAGAATATGAATTCATTTTCTGCAATAAGTAGGGCAATAGAT
EST: gi|38469413|gb|CF953544.1|CF953544
EST:     ATGTGAATGTTTCTGTTCGGCCAATTGGACAATCAAATTTTGGTACAAAG                         GTTGAAATAAAGAATATGAATTCATTTTCTGCAATAAGTAGGGCAATAGAT
genomic: ATGTGAATGTTTCTGTTCGGCCAATTGGACAATCAAATTTTGGTACAAAGgtaatcatga ... tggctgccagGTTGAAATAAAGAATATGAATTCATTTTCTGCAATAAGTAGGGCAATAGAT