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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAAATATTGTCATGCTGCTTGGGTATTGTTGCAAAGAAAGCTACAACATTTTGGTGTATGAGTACATATGCAACAAATCCCTTGAGTGGCATTTATTTGgtaagagcttagttgatgtgcagaaagtaatttatattgtgaagatgaagggtggctaatttactttgctcgtcacttgatgaaatag

Basic information

species Oryza sativa
transcript LOC_Os01g65940.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g65940.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G100454_T03 (Zea mays), 5'ss of exon 5
CGAAATATTGTCATGCTGCTTGGGTATTGTTGCAAAGAAAGCTACAACATTTTGGTGTATGAGTACATATGCAACAAATCCCTTGAGTGGCATTTATTTGgtaagagcttagttgatgtgcagaaagtaatttatattgtgaagatg-aagggtggctaatttactttgctc--gtcacttgatg-aaatag
|||||||||||||||||||||||||| || |||||||||||||| ||||| |||||||||||||| ||||||||||| || || ||||||||||||||||||| |    | |||||| |||  |||    |  | |   | |  |||  | | || |    |||||||||||  || ||||| || ||| ||
CGAAATATTGTCATGCTGCTTGGGTACTGCTGCAAAGAAAGCTATAACATCTTGGTGTATGAGTATATATGCAACAATTCTCTCGAGTGGCATTTATTTGgtatg----tggttgatatgcttaaaact-tcaaaagaataataatgcgatgatgacaggcttactttgctcttgttacttggtggaaacag

upper sequence: LOC_Os01g65940.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA13G09340.1 (Glycine max), 5'ss of exon 1
CGAAATATTGTCATGCTGCTTGGGTATTGTTGCAAAGAAAGCTACAACATTTTGGTGTATGAGTACATATGCAACAAATCCCTTGAGTGGCATTTATTTGgtaagagctta-gttgatgtgcagaaagtaatttatattgtgaagatgaagggtggctaatttactttgctcgtcacttgatgaaatag-----------
   ||||| || |||||  | || || |||| |||||| ||    ||||||||||| |||||||| || |||||||| || ||||| ||||||||| ||||||||  || | |||| | |        || ||  | ||||  | ||  |   | | |  |   | |   |  ||     |  | ||             
AAGAATATAGTAATGCTTTTGGGTTACTGTTTCAAAGATAGGCTAAACATTTTGGTATATGAGTATATTTGCAACAAGTCTCTTGATTGGCATTTAGTTGgtaagtactaaagttgtttttttctttttacttgtttttgttgaaatataaatttgattttgaccctcatttatccaaacagaagatcaattcttagaaa

upper sequence: LOC_Os01g65940.1 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv18s0001g14990.t01 (Vitis vinifera), 5'ss of exon 6
CGAAATATTGTCATGCTGCTTGGGTATTGTTGCAAAGAAAGCTACAACATTTTGGTGTATGAGTACATATGCAACAAATCCCTTGAGTGGCATTTATTTGgtaagagcttagttgatgtgcagaaagtaa-tttatattgtgaagat---------gaagggtggctaatttact---ttgctcgtcacttgatga--aatag---------------------------------------
   || ||||| |||||  | || ||||||||||| || | ||  || || |||||||||||||| || |||||||| || ||||| ||||| ||||||||||||    |        | |||     || |  ||    |    ||         |     |  | |||| | |   ||| ||   |    |  |  ||| |                                       
AAGAACATTGTGATGCTCTTGGGTTATTGTTGCAAGGAGAACTTTAATATCTTGGTGTATGAGTATATCTGCAACAAGTCTCTTGAATGGCACTTATTTGgtaagcaactgtacagactacaggtttcaaatccattccatctcaatttttttctaggtctttcaccaattcaatcacttgttctctatcccaaaattaatcgttaattgccttcttttaatttttgcaatgatttttatag

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|29682553|gb|CB678828.1|CB678828
EST:     TTTGGTGTATGAGTACATATGCAACAAATCCCTTGAGTGGCATTTATTTG                         ACAAGGACGCAAACTTACTGGAATGGCACAAGAGGCATGCTATTGCCCTTG
genomic: TTTGGTGTATGAGTACATATGCAACAAATCCCTTGAGTGGCATTTATTTGgtaagagctt ... gatgaaatagACAAGGACGCAAACTTACTGGAATGGCACAAGAGGCATGCTATTGCCCTTG