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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCTGGAAATCAGGCGCTGTAACCACTTTAGGCCGAGGTGGCAGTGACTTGACTGCTACAACCATTGGTAAAGCCCTGGGGTTGAGAGAAATTCAGgtccatggtgaagtctaaatataattttgctcttcacaaacaaaaattagagcctacagtttgctattttaatttgtttatcatgctgattagcttagtggagcagaaagtcactacctactttgtctgaaagcataccactgcctgtcatag

Basic information

species Oryza sativa
transcript LOC_Os01g70300.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g70300.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G300862_T05 (Zea mays), 5'ss of exon 6
GGCTGGAAATCAGGCGCTGTAACCACTTTAGGCCGAGGTGGCAGTGACTTGACTGCTACAACCATTGGTAAAGCCCTGGGGTTGAGAGAAATTCAGgtccatggtgaagtctaaatata---------------attttgctcttcacaaacaaaaattagagcctacagtttgctattttaatttgtttatcatgctgattagcttagtggagcagaaagtc-------actacctactttgtctgaaagcataccactgcctgtcatag
||||||||||| || |||||||| ||||||||||||||||| ||||||||||||||||||||||||||||||||| ||||  ||||||||||||||||| ||| |  ||||| |||| |               ||||| || |      | |||| || ||| | ||||||     |  | | |    || ||||   |||   | |     |  |    ||       | | |||| || ||||||||||||||   ||| ||| ||||
GGCTGGAAATCTGGTGCTGTAACTACTTTAGGCCGAGGTGGTAGTGACTTGACTGCTACAACCATTGGTAAAGCCTTGGGACTGAGAGAAATTCAGgtctatg-tttagtctgaatagatattgaataaaccatatttttctttctgaggaaaaaagtt-gagacaacagttgatgctaatcactaagctagcatgtgcatttcatgaaaattgttgcttatccccatatattgcctaattggtctgaaagcatactg-tgcttgtgatag

upper sequence: LOC_Os01g70300.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM5G866647_T01 (Zea mays), 5'ss of exon 3
GGCTGGAAATCAGGCGCTGTAACCACTTTAGGCCGAGGTGGCAGTGACTTGACTGCTACAACCATTGGTAAAGCCCTGGGGTTGAGAGAAATTCAGgtccatggtgaagtctaaata------taat--------tttgctcttcacaaacaaaaattagagcctacagtttgctattttaatttgtttatcatgctgattagcttagtggagcagaaagtc-------actacctactttgtctgaaagcataccactgcctgtcatag
||||||||||| || |||||||| ||||||||||||||||| || |||||||||||||||||||||||||||||| ||||  ||||||||||||||||| ||| |  ||||| ||||      ||||        |||    |||  |   ||||| | ||| | ||||||     |  | | |    || ||||   |||   | |     |  |    ||       | | |||| || ||||||||||||||   ||| ||| ||||
GGCTGGAAATCTGGTGCTGTAACTACTTTAGGCCGAGGTGGTAGCGACTTGACTGCTACAACCATTGGTAAAGCCTTGGGACTGAGAGAAATTCAGgtctatg-tttagtctgaatagatatttaataaactatatttttctttctgaggaaaaaagttgagacaacagttgatgctaatcactaagctagcatgtgcatttcatgaaaatcgttgcttatccccatacattgcctaattggtctgaaagcatactg-tgcttgtgatag

upper sequence: LOC_Os01g70300.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G166366_T01 (Zea mays), 5'ss of exon 1
--------------------------------------GGCTGGAAATCAGGCGCTGTAACCACTTTAGGCCGAGGTGGCAGTGACTTGACTGCTACAACCATTGGTAAAGCCCTGGG-GTTGAGAGAAATTCAGgtccatggtgaagtctaaatataattttgctcttcacaaacaaaaattagagcctacagtttgctattttaatttgtttatcatgctgattagcttagtggagcagaaagtcactacctactttgtctgaaagcataccactgcctgtcatag
                                      |||| ||||||||| |||||||| |||||||||| |||||| || ||||     ||||||||||||||||||||| |||| |||| ||   |   |  | ||||   | || ||                                                                                                                                        
ATGAGGCAACTTGTAACTGCAACTGCCATCACTTGCAGGGCTAGAAATCAGgtgctgtaactactttaggcctaggtggtagcgact-----gctacaaccattggtaaagccttgggagttgggactgacagaaattcatgtctatgtttagtct------------------------------------------------------------------------------------------------------------------------------------

upper sequence: LOC_Os01g70300.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G300862_T02 (Zea mays), 5'ss of exon 7
GGCTGGAAATCAGGCGCTGTAACCACTTTAGGCCGAGGTGGCAGTGACTTGACTGCTACAACCATTGGTAAAGCCCTGGGGTTGAGAGAAATTCAGgtccatggtgaagtctaaatata-attttgctcttcacaaacaaaaattagagcctacagtttgctattttaatttgtttatcatgctgattagcttagtggagcagaaagtcactacctactttgtctgaaagcataccactgcctgtcatag
||||||||||| || |||||||| ||||||||||||||||| ||||||||||||||||||||||||||||||||| ||||  ||||||||||||||||| ||| |  ||||| |||| | |||        || |        |  |||   | |  |||  |    |                                                                                  
GGCTGGAAATCTGGTGCTGTAACTACTTTAGGCCGAGGTGGTAGTGACTTGACTGCTACAACCATTGgtaaagccttgggactgagagaaattcaggtctatg-tttagtctgaatagatattgaataaaccatatttttctttctgaggaaaaaagttgagacaaca----------------------------------------------------------------------------------

upper sequence: LOC_Os01g70300.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G700866_T02 (Zea mays), 5'ss of exon 8
GGCTGGAAATCAGGCGCTGTAACCACTTTAGGCCGAGGTGGCAGTGACTTGACTGCTACAACCATTGGTAAAGCCCTGGGGTTGAGAGAAATTCAGgtccatggtgaagtctaaatataattttgctcttcacaaacaaaaattagagcctacagtttgctattttaatttgtttatcatgctgattagcttagtggagcagaaagtcactacctactttgtctgaaagcataccactgcctgtcatag
||||||||||| || ||| |||| |||||||||| |||||| || ||||||| ||||| |||||||||||||||| ||||  ||||||||||||||||| ||| |  ||||| |||| |  |||       | |||| | | ||         ||      | || |     |   | ||||| || |   ||    ||||                                                
GGCTGGAAATCTGGTGCTATAACTACTTTAGGCCAAGGTGGTAGCGACTTGATTGCTATAACCATTGGTAAAGCCTTGGGACTGAGAGAAATTCAGgtctatg-tttagtctgaatagatattta------ataaaccatatttttctttatgaggaaaaaagttgagacaatagttgatgctaatca--ctaagctagcatgtg--------------------------------------------

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|58669471|gb|CK058157.1|CK058157
EST:     ACTTGACTGCTACAACCATTGGTAAAGCCCTGGGGTTGAGAGAAATTCAG                         GTATGGAAAGATGTTGATGGTGTACTGACCTGTGATCCAAATATCTACCCG
genomic: ACTTGACTGCTACAACCATTGGTAAAGCCCTGGGGTTGAGAGAAATTCAGgtccatggtg ... cctgtcatagGTATGGAAAGATGTTGATGGTGTACTGACCTGTGATCCAAATATCTACCCG
EST: gi|29669913|gb|CB666188.1|CB666188
EST:     ACTTGACTGCTACAACCATTGGTAAAGCCCTGGGGTTGAGAGAAATTCAG                         GTATGGAAAGATGTTGATGGTGTACTGACCTGTGATCCAAATATCTACCCG
genomic: ACTTGACTGCTACAACCATTGGTAAAGCCCTGGGGTTGAGAGAAATTCAGgtccatggtg ... cctgtcatagGTATGGAAAGATGTTGATGGTGTACTGACCTGTGATCCAAATATCTACCCG