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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGCTTGGAGTCAAGAGAACTGAAAGGGTTCTTCCAACTGGAACTTCATTGACTGTTGTTGGTGAGgtaattcatagctttaattcgtctgcaatgccttgtgttggtgccctattttcctttacatggctaagtcttgctttcgtttttgattcttatgttgtatgaatag

Basic information

species Oryza sativa
transcript LOC_Os07g45350.3
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g45350.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G020574_T01 (Zea mays), 5'ss of exon 6
ATGCTTGGAGTCAAGAGAACTGAAAGGGTTCTTCCAACTGGAACTTCATTGACTGTTGTTGGTGAGgta--attcatagctttaattcgtctgcaatgccttgtgttggtgccctattttcctttacatggctaagtcttgctttcgtttt---tgattcttatgttgtatgaatag------------
||||| ||||| ||| |||||||||||||||||||||||||||| |||||||| |||||||||||||||  |||  ||   |  ||| || ||   ||  |||  || ||    | ||  | | |  ||   |   |||| |||| ||| |   | ||| |||| |   ||||| ||            
ATGCTGGGAGTAAAGCGAACTGAAAGGGTTCTTCCAACTGGAACCTCATTGACAGTTGTTGGTGAGGTATTATTTCTATTATCCATTGgtatgtgctgtgttgcattagt-ttttcttggcatgtctatatttgtctcttccttttgttctatattattattatatcacatgaacaggccattaaagat

upper sequence: LOC_Os07g45350.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G020574_T08 (Zea mays), 5'ss of exon 6
ATGCTTGGAGTCAAGAGAACTGAAAGGGTTCTTCCAACTGGAACTTCATTGACTGTTGTTGGTGAGgta--attcatagctttaattcgtctgcaatgccttgtgttggtgccctattttcctttacatggctaagtcttgctttcgtttt---tgattcttatgttgtatgaatag
||||| ||||| ||| |||||||||||||||||||||||||||| |||||||| |||||||||||||||  |||  ||   |  ||| || ||   ||  |||  || ||    | ||  | | |  ||   |   |||| |||| ||| |   | ||| |||| |   ||||| ||
ATGCTGGGAGTAAAGCGAACTGAAAGGGTTCTTCCAACTGGAACCTCATTGACAGTTGTTGGTGAGgtattatttctattatccattggtatgtgctgtgttgcattagt-ttttcttggcatgtctatatttgtctcttccttttgttctatattattattatatcacatgaacag

upper sequence: LOC_Os07g45350.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM5G873779_T01 (Zea mays), 5'ss of exon 2
----------------------------------ATGCTTGGAGTCAAGAGAACTGAAAGGGTTCTTCCAACTGGAACTTCATTGACTGTTGTTGGTGAGgta--attcatagctttaattcgtctgcaatgccttgtgttggtgccctattttcctttacatggctaagtcttgctttcgtttt---tgattcttatgttgtatgaatag
                                  ||||| ||||| ||| |||||||||||||||||||||||||||| |||||||| |||||||||||||||  |||  ||   |  ||| || ||   ||  |||  || ||    | ||  | | |  ||   |   |||| |||| ||| |   | ||| |||| |   ||||| ||
AACACAATTAGTGACTAAACAATTATCTCTATAGATGCTGGGAGTAAAGCGAACTGAAAGGGTTCTTCCAACTGGAACCTCATTGACAGTTGTTGGTGAGgtattatttctattatccattggtatgtgctgtgttgcattagt-ttttcttggcatgtctatatttgtctcttccttttgttctatattattattatatcacatgaacag

upper sequence: LOC_Os07g45350.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM5G871572_T01 (Zea mays), 5'ss of exon 6
ATGCTTGGAGTCAAGAGAACTGAAAGGGTTCTTCCAACTGGAACTTCATTGACTGTTGTTGGTGAGgta--attcatagctttaattcgtctgcaatgccttgtgttggtgccctat----tttcctttacatggctaagtcttgctttcgtttttgattcttatgttgtatgaatag
||||| ||||| ||  |||||||||||||||||||||||||||  |||||||| |||||||||||||||  |||  || | || ||  |||||   ||  | |  || ||      |    | ||   |  ||   |   |||| |||| ||| ||  ||||||| ||| ||||| ||
ATGCTGGGAGTAAAACGAACTGAAAGGGTTCTTCCAACTGGAATCTCATTGACAGTTGTTGGTGAGgtattatttctatcattcatcggtctgtgctgtgtggcattagtctttgttgacatgtctaatgtatatttgtctctttcttttgttatttgttcttatattgcatgaacag

upper sequence: LOC_Os07g45350.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G020574_T07 (Zea mays), 5'ss of exon 6
ATGCTTGGAGTCAAGAGAACTGAAAGGGTTCTTCCAACTGGAACTTCATTGACTGTTGTTGGTGAGgta--attcatagctttaattcgtctgcaatgccttgtgttggtgccctattttcctttacatggctaagtcttgctttcgtttt---tgattcttatgttgtatgaatag------------------------------------
||||| ||||| ||| |||||||||||||||||||||||||||| |||||||| |||||||||||||||  |||  ||   |  ||| || ||   ||  |||  || ||    | ||  | | |  ||   |   |||| |||| ||| |   | ||| |||| |   ||||| ||                                    
ATGCTGGGAGTAAAGCGAACTGAAAGGGTTCTTCCAACTGGAACCTCATTGACAGTTGTTGGTGAGgtattatttctattatccattggtatgtgctgtgttgcattagt-ttttcttggcatgtctatatttgtctcttccttttgttctatattattattatatcacatgaacaggccattaaagatgatgttggaactattcgaattcag

upper sequence: LOC_Os07g45350.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA10G02920.1 (Glycine max), 5'ss of exon 6
ATGCTTGGAGTCAAGAGAACTGAAAGGGTTCTTCCAACTGGAACTTCATTGACTGTTGTTGGTGAGgtaattcatagctttaattcgtctgcaatgccttgtgttggtgccctattttcctttacatggctaagtcttgctttcgtttttgattcttatgttgtatgaatag
||||||||||||||||||| |||| |||| ||||||  ||||||||| |||||||||||||||||||||||  |     ||||||        |||||| || |   | | | ||  |    || |   || | | |   | |  ||  |  |      |||| | || || 
ATGCTTGGAGTCAAGAGAATTGAACGGGTACTTCCAGTTGGAACTTCCTTGACTGTTGTTGGTGAGgtaatgtaa----ttaatttcaagaatatgcctagt-tactttctcaatagtgtcgtatactactgaatttcattataattggtattagcagggttgca-gagtat

upper sequence: LOC_Os07g45350.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA02G16860.1 (Glycine max), 5'ss of exon 6
ATGCTTGGAGTCAAGAGAACTGAAAGGGTTCTTCCAACTGGAACTTCATTGACTGTTGTTGGTGAGgtaattcatagctttaattcgtctgcaatgccttgtgttggtgccctattttcctttacatggctaagtcttgctttcgtttttgattcttatgttgtatgaatag
||||||||||||||||||| |||| |||| ||||||  ||||||||| |||||||||||||||||||||||  |     ||||||        |||||| || |   | | | ||  | |  ||     || | | |   | |  ||     |  ||     ||||  ||||
ATGCTTGGAGTCAAGAGAATTGAACGGGTACTTCCAGTTGGAACTTCCTTGACTGTTGTTGGTGAGgtaatgtaa----ttaatttcaagaatatgcctagt-tactttctcaatagtgccgtattctactgaatttcattataattagcagtg-ttgcagagtatatatag

upper sequence: LOC_Os07g45350.2 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv07s0104g00630.t01 (Vitis vinifera), 5'ss of exon 6
ATGCTTGGAGTCAAGAGAACTGAAAGGGTTCTTCCAACTGGAACTTCATTGACTGTTGTTGGTGAGgtaa--ttcatagctttaattcgtctgcaatgccttgtgttggtgccctattttcctttacatggctaagtcttgctttcgtttttgattc-ttatgttgtatgaatag
||||| ||||| ||| ||| |||  |||||||||||||||| ||  | |||||||||||||||||||||   ||||   |||||     |   ||         | |  | |  |   |   | ||||  | |     |    | |  |||     | ||||||||    || ||
ATGCTCGGAGTGAAGCGAATTGAGCGGGTTCTTCCAACTGGCACACCTTTGACTGTTGTTGGTGAGgtatgtttcaccactttaccaaattgaca---------gatatttctttgcatagatatacactgtttcaattgctatccactttaagcgcattatgttggtaaaagag

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|29684518|gb|CB680793.1|CB680793
EST:     GAACTGAAAGGGTTCTTCCAACTGGAACTTCATTGACTGTTGTTGGTGAG                         GCCATTAAAGATGATGTTGGAACTATTCGAATTCAGCGACCACACAAAGGA
genomic: GAACTGAAAGGGTTCTTCCAACTGGAACTTCATTGACTGTTGTTGGTGAGgtaattcata ... gtatgaatagGCCATTAAAGATGATGTTGGAACTATTCGAATTCAGCGACCACACAAAGGA
EST: gi|29680615|gb|CB676890.1|CB676890
EST:     GAACTGAAAGGGTTCTTCCAACTGGAACTTCATTGACTGTTGTTGGTGAG                         GCCATTAAAGATGATGTTGGAACTATTCGAATTCAGCGACCACACAAAGGA
genomic: GAACTGAAAGGGTTCTTCCAACTGGAACTTCATTGACTGTTGTTGGTGAGgtaattcata ... gtatgaatagGCCATTAAAGATGATGTTGGAACTATTCGAATTCAGCGACCACACAAAGGA