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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGACTTCGATCACATACTCTATCCATCCTTGTCAATGATTGCCCTGGTGTTCTCAACATTGTTACAGGGGTCTTTGCTCGCAGAGGCTACAATATACAGgttttctttttttcgaatagttattacctcgccgtcatgcctgattagttgttaacaagaccatactactggtcag

Basic information

species Oryza sativa
transcript LOC_Os02g39570.6
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g39570.5 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G007647_T01 (Zea mays), 5'ss of exon 8
TGGACTTCGATCACATACTCTATCCATCCTTGTCAATGATTGCCCTGGTGTTCTCAACATTGTTACAGGGGTCTTTGCTCGCAGAGGCTACAATATACAGgttttctttttttc---gaatagttattacc--tcgccgtcatgcctgattagttgttaacaagaccatactactggtcag
||||||| | || ||||| || ||||||||||| |||||||| |||||||||||||||||||| ||||| |||||||||||||| ||||||||||||||||||||||||||||     || || | ||     |     |  |  | | ||| || ||||||||    ||||    |||||
TGGACTTTGCTCGCATACCCTCTCCATCCTTGTGAATGATTGTCCTGGTGTTCTCAACATTGTAACAGGAGTCTTTGCTCGCAGGGGCTACAATATACAGgttttctttttttttcgaaaaagctcttcttgttgaatatagtagcaggttaattattaacaagtgggtact---tgtcag

upper sequence: LOC_Os02g39570.5 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G407044_T02 (Zea mays), 5'ss of exon 9
TGGACTTCGATCACATACTCTATCCATCCTTGTCAATGATTGCCCTGGTGTTCTCAACATTGTTACAGGGGTCTTTGCTCGCAGAGGCTACAATATACAGgttttctttttttcgaatagttattacctcgccg----tcatgcctgattagttgttaacaagaccatactactggtcag
||||||||| || |||||||| ||||||||||| ||||| || |||||||| ||||||||||| ||||| |||||||||||||| ||||||||||||||||||||||||||    ||   |   |  || |  |    |  |||| |  ||||| || |||||  ||||||    |||||
TGGACTTCGCTCGCATACTCTCTCCATCCTTGTGAATGACTGTCCTGGTGTCCTCAACATTGTAACAGGAGTCTTTGCTCGCAGGGGCTACAATATACAGgttttctttttcgacaaagttccctttcttgttgaatatagtgccaggctagttattgacaagtgcatact---tgtcag

upper sequence: LOC_Os02g39570.5 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA05G30130.1 (Glycine max), 5'ss of exon 8
TGGACTTCGATCACATACTCTATCCATCCTTGTCAATGATTGCCCTGGTGTTCTCAACATTGTTACAGGGGTCTTTGCTCGCAGAGGCTACAATATACAGgttttctttttttcgaatagttattacctcgccgtcatgcctgattagttgttaacaagacca-tactactggtcag--------------------------------------
|||| |||||||||| ||  ||||||| ||||| || |||   ||||| ||||| |||||||||||||| || |||||| | |||||||| || || |||||||||||||| |   ||  |||| |  |    ||     |  |||    |   | ||  ||| |  |  || |                                         
TGGAATTCGATCACACACGTTATCCATGCTTGTGAACGATGCTCCTGGAGTTCTAAACATTGTTACAGGAGTTTTTGCTAGAAGAGGCTATAACATTCAGgttttctttttattttatt-ttataatatttgtgta----caaattgcaagcacataaatccaatgtttttgatttctctgttttctcatcttgaatctgctttgttatttccag

upper sequence: LOC_Os02g39570.5 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA08G13290.1 (Glycine max), 5'ss of exon 8
TGGACTTCGATCACATACTCTATCCATCCTTGTCAATGATTGCCCTGGTGTTCTCAACATTGTTACAGGGGTCTTTGCTCGCAGAGGCTACAATATACAGgttttctttttt----tcgaatagttat---tacctcgccgtcatgcctgattagttgttaacaagaccata--ctactggtcag-------------------------
|||| |||||||||| ||| ||||||| ||||| || |||   ||||| ||||| |||||||||||||| || |||||| | |||||||| || || ||||||| |||||||    |  |||| || |    |  | ||   ||  |  |   | |  ||        |      | ||  ||                           
TGGAATTCGATCACACACTTTATCCATGCTTGTGAACGATGCTCCTGGAGTTCTAAACATTGTTACAGGAGTTTTTGCTAGAAGAGGCTATAACATTCAGgtttgcttttttattttataatatttgtgtacaaattgcaagcacacaagtccaatcctttttggtttctctgttttctcatcttcttgaatctgctttgttatttccag

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|29676546|gb|CB672821.1|CB672821
EST:     TTCTCAACATTGTTACAGGGGTCTTTGCTCGCAGAGGCTACAATATACAG                         AGTCTTGCTGTAGGCCCAGCTGAAAAGTCAGGCCTTTCGCGTATTACAACA
genomic: TTCTCAACATTGTTACAGGGGTCTTTGCTCGCAGAGGCTACAATATACAGgttttctttt ... tactggtcagAGTCTTGCTGTAGGCCCAGCTGAAAAGTCAGGCCTTTCGCGTATTACAACA
EST: gi|32948291|gb|BP184863.1|BP184863
EST:     TTCTCAACATTGTTACAGGGGTCTTTGCTCGCAGAGGCTACAATATACAG                         AGTCTTGCTGTAGGCCCAGCTGAAAAGTCAGGCCTTTCGCGTATTACAACA
genomic: TTCTCAACATTGTTACAGGGGTCTTTGCTCGCAGAGGCTACAATATACAGgttttctttt ... tactggtcagAGTCTTGCTGTAGGCCCAGCTGAAAAGTCAGGCCTTTCGCGTATTACAACA
EST: gi|32948361|gb|BP184933.1|BP184933
EST:     TTCTCAACATTGTTACAGGGGTCTTTGCTCGCAGAGGCTACAATATACAG                         AGTCTTGCTGTAGGCCCAGCTGAAAAGTCAGGCCTTTCGCGTATTACAACA
genomic: TTCTCAACATTGTTACAGGGGTCTTTGCTCGCAGAGGCTACAATATACAGgttttctttt ... tactggtcagAGTCTTGCTGTAGGCCCAGCTGAAAAGTCAGGCCTTTCGCGTATTACAACA
EST: gi|86522997|gb|CI163203.1|CI163203
EST:     TCGCAGAGGCTACAATATACAG                         AGTCTTGCTGTAGGCCCAGCTGAAAAGTCAGGCCTTTCGCGTATTACAACA
genomic: TCGCAGAGGCTACAATATACAGgttttctttt ... tactggtcagAGTCTTGCTGTAGGCCCAGCTGAAAAGTCAGGCCTTTCGCGTATTACAACA
EST: gi|33682200|gb|CF310439.1|CF310439
EST:     TTCTCAACATTGTTACAGGGGTCTTTGCTCGCAGAGGCTACAATATACAG                         AGTCTTGCTGTAGGCCCAGCTGAAAAGTCAGGCCTTTCGCGTATTACAACA
genomic: TTCTCAACATTGTTACAGGGGTCTTTGCTCGCAGAGGCTACAATATACAGgttttctttt ... tactggtcagAGTCTTGCTGTAGGCCCAGCTGAAAAGTCAGGCCTTTCGCGTATTACAACA