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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAATCCGAAAACGTGGGCTAAAGGTTTCTGTTGCTGGGATTCCCAAGACAATAGATAATGACATAGCGgtattttttttgtgcgatgtgtctatttttgtgtagaaatttgttgtacgcatgctgttcagttgacggttcatacgagattatgacttattgcttatgttacctttttcttgattcttag

Basic information

species Oryza sativa
transcript LOC_Os05g44922.2
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g44922.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G004932_T01 (Zea mays), 5'ss of exon 8
GAAATCCGAAAACGTGGGCTAAAGGTTTCTGTTGCTGGGATTCCCAAGACAATAGATAATGACATAGCGgtattttttttgtgcgatgtgtctatttt-tgtgtagaaatttgttgtacgcatgctgttcagttgacggttcatacgagattatgacttattgcttatgttacctttttcttgattcttag
|||||||| || ||||| || || ||||||||||||||  |||| |||||||||||||||||||| |||||| | || | |   ||| ||| || ||| | |  | ||      | |||  |  |  || |  || |   ||||  ||   | ||||  |    |  | ||   |||              
GAAATCCGGAAGCGTGGCCTCAAAGTTTCTGTTGCTGGAGTTCCAAAGACAATAGATAATGACATTGCGgtaatattct-gcaagatatgtttactttctattcaaaagccgtctctacataccccattaatatggccactcatgtgaa--tgtgacacacaaatc-tattgattttag------------

upper sequence: LOC_Os05g44922.2 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv11s0016g02850.t01 (Vitis vinifera), 5'ss of exon 8
GAAATCCGAAAACGTGGGCTAAAGGTTTCTGTTGCTGGGATTCCCAAGACAATAGATAATGACATAGCGgtat-tttttttgtgcgatgtgtctatttttgtgtagaaatttg--ttgtacgcatg-----ctgttcagttgacggttcatacgagatt--------atgacttattgcttatgttacctttttcttgattcttag---------------------
||||| | ||  ||||| ||||| ||| | |||||||| |||||||| ||||| |||||||||||  |||||  | | |||||    |   |   |  || |        |||  |  ||| | ||      ||   || |     |||| |    |||        ||   ||||||   |  |  | ||||  |||||| |||                      
GAAATTCAAAGGCGTGGTCTAAAAGTTGCAGTTGCTGGAATTCCCAAAACAATTGATAATGACATTCCGgtacatctctttgtttccttaattgctgattataggaccggttggatattacacctgatttattgcatagatataaattcaaaaacaatttttttcctattttttattgaccaattctctttttagttgatttttacctccgactattgctggtacag
















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|569752|gb|D40601.1|D40601
EST:     TAAAGGTTTCTGTTGCTGGGATTCCCAAGACAATAGATAATGACATAGCG                         ATCATTGACAAGTCATTTGGTTTTGATACGGCCNTAGAAGNGGCCCAGCGT
genomic: TAAAGGTTTCTGTTGCTGGGATTCCCAAGACAATAGATAATGACATAGCGgtattttttt ... tgattcttagATCATTGACAAGTCATTTGGTTTTGATACGGCCGTAGAAGAGGCCCAGCGT
EST: gi|27576264|gb|CA998958.1|CA998958
EST:     CCCAAGACAATAGATAATGACATAGCG                         ATCATTGACAAGTCATTTGGTTTTGATACGGCCGTAGAAGAGGCCCAGCGT
genomic: CCCAAGACAATAGATAATGACATAGCGgtattttttt ... tgattcttagATCATTGACAAGTCATTTGGTTTTGATACGGCCGTAGAAGAGGCCCAGCGT
EST: gi|571842|gb|D41353.1|D41353
EST:     TAAAGGTTTCTGTTGCTGGGATTCCCAAGACAATAGATAATGACATAGCG                         ATCATTGACAAGTCATTTGGTTTTGATACGGCCGTAGAAAGAGGCC-AGCG
genomic: TAAAGGTTTCTGTTGCTGGGATTCCCAAGACAATAGATAATGACATAGCGgtattttttt ... tgattcttagATCATTGACAAGTCATTTGGTTTTGATACGGCCGTAGAA-GAGGCCCAGCG