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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAATTCTTCAGAAGTTGTGAGGGGCCTTTTTGTTCCTGAACTTAAAGGGAATGGAGCCACAGGTCTTGCTATCTCACTACTTGGTGCTATGGTGATGCCgtgagcttcctgtccaccccttttgtcccaaacatatctttaactttcgacaaaaacattttccatgtattattcttattacag

Basic information

species Oryza sativa
transcript LOC_Os06g46310.3
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g46310.3 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G069198_T04 (Zea mays), 5'ss of exon 8
CAAATTCTTCAGAAGTTGTGAGGGGCCTTTTTGTTCCTGAACTTAAAGGGAATGGAGCCACAGGTCTTGCTATCTCACTACTTGGTGCTATGGTGATGCCgtgagcttcctgtccaccccttttgt-cccaaacatatctttaactttcgacaaaaacattttccatgtat----tattcttattacag
||||| || |||||||||| ||||||||||||||||||||||||||||| |||||||| ||||| |||||||||||| |||||||||||||||||||||||| |||||| | | |   | || ||| ||||| ||| |  || |      | || | | |||||||| |||    ||     ||| |||
CAAATGCTCCAGAAGTTGTTAGGGGCCTTTTTGTTCCTGAACTTAAAGGAAATGGAGCTACAGGCCTTGCTATCTCATTACTTGGTGCTATGGTGATGCCgtaagcttctttttctatctttctgttcccaagcatttggtttagaac--ataagacctttttccatttatctgttacataaattgcag

upper sequence: LOC_Os06g46310.3 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA07G02680.1 (Glycine max), 5'ss of exon 6
CAAATTCTTCAGAAGTTGTGAGGGGCCTTTTTGTTCCTGAACTTAAAGGGAATGGAGCCACAGGTCTTGCTATCTCACTACTTGGTGCTATGGTGATGCCgtgag-------cttcctgtccaccccttt-------tgtccca-aacatatctttaactttcgacaaaaacattttccatgtatt-attcttattacag-
|     |   ||||||||||   || |||||||||||  ||||| | ||| |||| ||||| |||||||| || ||||| ||||| || ||||| |||||||| |       |||| | | || || |||       ||||||  |||||||  |    | |  |  | |   || |  ||  |||  || ||||||    
CGGTGGCCAAAGAAGTTGTGGCCGGTCTTTTTGTTCCAAAACTTCAGGGGCATGGTGCCACTGGTCTTGCAATTTCACTCCTTGGGGCAATGGTTATGCCgtgggtgtctcacttcttttgcatccatttctttttctgtcccttaacatataatgtgatct-aatgatatgtttctttatacatttgtttttattatgat

upper sequence: LOC_Os06g46310.3 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA08G23320.1 (Glycine max), 5'ss of exon 8
CAAATTCTTCAGAAGTTGTGAGGGGCCTTTTTGTTCCTGAACTTAAAGGGAATGGAGCCACAGGTCTTGCTATCTCACTACTTGGTGCTATGGTGATGCCgtgag--cttcctgtccacccc--ttttgtcccaaacatatctttaactttcgacaaaaacattttccatgtattatt-----cttattacag
|     |   ||||||||||| ||| |||||||||||  ||||| | ||| |||| ||||| |||||||| || ||||| ||||| || ||||| |||||||| |  | || ||||     |     | ||     |    | ||||  |   |    | |   | | |||| |  ||      ||  | |||
CGGTGGCCAAAGAAGTTGTGACGGGTCTTTTTGTTCCAAAACTTCAGGGGCATGGTGCCACTGGTCTTGCAATTTCACTCCTTGGGGCAATGGTTATGCCgtgggtgcctcatgtcttttgcagccatttctttttctgtcccttaatatgtaatgtgatctaatgctatgtttctttatgcatttgcttcag

upper sequence: LOC_Os06g46310.3 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv09s0070g00210.t01 (Vitis vinifera), 5'ss of exon 8
CAAATTCTTCAGAAGTTGTGAGGGGCCTTTTTGTTCCTGAACTTAAAGGGAATGGAGCCACAGGTCTTGCTATCTCACTACTTGGTGCTATGGTGATGCCgtgagcttcctgtccaccccttttgtcccaaacatatctttaactttcgacaaaaacattttcca-tgtattattcttattacag---------
| ||||||||||||||  || | || || ||||||||  |||| ||||| ||||| || || |||||||| || || || |||||||||||||| ||||||| || ||| | |   |       || |  |   |  | |  | |||  | ||||| ||| ||   | | ||     |  | ||          
CCAATTCTTCAGAAGTCTTGCGTGGACTCTTTGTTCCACAACTCAAAGGAAATGGTGCTACTGGTCTTGCAATTTCCCTCCTTGGTGCTATGGTTATGCCgtaagtttcttatgtccatgagaagtgcttatttttccatgcatttttcaaaaaaatattctcttctttgttgactctcatgcacttgctgcag

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|28298205|gb|CB238435.1|CB238435
EST:     AATGGAGCCACAGGTCTTGCTATCTCACTACTTGGTGCTATGGTGATGCC                         GCATAGTCTTCTTCTCCACTCAGCATTGGTACTATCAAGAAAAGTGCCACG
genomic: AATGGAGCCACAGGTCTTGCTATCTCACTACTTGGTGCTATGGTGATGCCgtgagcttcc ... cttattacagGCATAATCTTTTTCTCCACTCAGCATTGGTACTATCAAGAAAAGTGCCACG