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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTATGTTGCAACAAGGTGGTATCGTGCACCTGAACTTTGTGGATCTTTTTTCTCTAAGgttagtcaccttcttaatatgttgtaatttttttatttaaatcatggtatttccaagaatacccttgtttccatttcattattgttgttatatttttctc...

Basic information

species Oryza sativa
transcript LOC_Os11g17080.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g17080.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA17G02220.1 (Glycine max), 5'ss of exon 4
GATTATGTTGCAACAAGGTGGTATCGTGCACCTGAACTTTGTGGATCTTTTTTCTCTAAGgttagtcaccttcttaatatgttgtaatttttttatttaaatcatggtatttccaagaatacccttgtttccatttcattattgttgttata----tttttctc-
|||||||||||||||||||||||| | || |||||| | |||||||| |||||||| ||||||    | ||  |||  |  || |      |  ||        |  | ||  ||    || |   | || || |  |  |   | |  | |    |||||||  
GATTATGTTGCAACAAGGTGGTATAGAGCTCCTGAATTGTGTGGATCCTTTTTCTCCAAGgttcaatatctg-ttaccaatttat----cctggatgactgctctctttttctcatacttagcacagcttgcaatctaaaagcttgggcacacagctttttctta

upper sequence: LOC_Os11g17080.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA07G38510.1 (Glycine max), 5'ss of exon 3
GATTATGTTGCAACAAGGTGGTATCGTGCACCTGAACTTTGTGGATCTTTTTTCTCTAAGgttagtcaccttcttaatatgttgtaatttttttatttaaatcatggtatttccaagaatacccttgtttccatttcattattgttgttatatttttctc-----
||||| |||||||||||||||||| | || |||||| | |||||||| |||||||| ||||||    | ||  |||  |  || |      |  ||        || |  |  ||    || |   | || || |  |  | | | |  | |||  | ||     
GATTACGTTGCAACAAGGTGGTATAGAGCTCCTGAATTGTGTGGATCCTTTTTCTCCAAGgttcaatatctg-ttaccaatttat----cctggatgactgctctgtttatctcatacttagcacagcttgcaatctaaaagtttgggcacattgctttcctcct

upper sequence: LOC_Os11g17080.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv05s0020g02530.t01 (Vitis vinifera), 5'ss of exon 4
GATTATGTTGCAACAAGGTGGTATCGTGCACCTGAACTTTGTGGATCTTTTTTCTCTAAGgttagtcaccttcttaatatgttgtaatttttttatttaaatcatggtatttccaagaat-acccttgtttccatttcattattgttgttatatttttctc
|||||||||||||||||||||||  | ||||||||| | ||||| || |||||||| ||||| |      || | |  |  || || |  ||    | | | | ||   |||||  |  | ||| || ||    ||  ||      || |  |  ||| | 
GATTATGTTGCAACAAGGTGGTACAGGGCACCTGAATTGTGTGGTTCATTTTTCTCCAAGgtaaaa-ggattgtcaccactttctattgattgcgctaatagcttgaattttccctgtgtcaccattattctttttctatctaaactgctgaacctttttt

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|117237171|gb|CT861779.1|CT861779
EST:     CAACAAGGTGGTATCGTGCACCTGAACTTTGTGGATCTTTTTTCTCTAAG                         TACACACCAGCAATAGATATATGGAGCATCGGTTGCATA
genomic: CAACAAGGTGGTATCGTGCACCTGAACTTTGTGGATCTTTTTTCTCTAAGgttagtcacc ... attcttgcagTACACACCAGCAATAGATATATGGAGCATCGGTTGCATA
EST: gi|58600533|gb|CK011061.1|CK011061
EST:     CAACAAGGTGGTATCGTGCACCTGAACTTTGTGGATCTTTTTTCTCTAAG                         TACACACCAGCAATAGATATATGGAGCATCGGTTGCATATTTGCAGAACTT
genomic: CAACAAGGTGGTATCGTGCACCTGAACTTTGTGGATCTTTTTTCTCTAAGgttagtcacc ... attcttgcagTACACACCAGCAATAGATATATGGAGCATCGGTTGCATATTTGCAGAACTT