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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGATCCATCGCAGAAGAACACACTGCTTGTTTTGAAATTTCTTCCATTTATGATAGGGTGGTTCTCTTTGTCAGTGCCGTCAGGGTTGTCCATTTATTGgtatgtgcatttgctattagttgtatgagtgtttcagtcatgttccatgctatagtgctatgcctcatagagattgtgggactcctccactgctcattaacttcttgcaattgatcaaatccaatatgtgtattgactccatgtttgctatcag

Basic information

species Oryza sativa
transcript LOC_Os01g05800.2
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g05800.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM5G839422_T01 (Zea mays), 5'ss of exon 8
ATGATCCATCGCAGAAGAACACACTGCTTGTTTTGAAATTTCTTCCATTTATGATAGGGTGGTTCTCTTTGTCAGTGCCGTCAGGGTTGTCCATTTATTGgtatgtgcatttg---ctattagttgtatgag---tgt-ttcagtcat--gttccatgctatagtgcta--tgcctcata-gagattgtggga--------------ctcctccactgctcattaacttct----tgcaattgatca--aatccaatatgtgtattgactccatgtttgctatcag
|||| ||||| |||||||||||| ||||  ||||||||||||||||||||||||| || |||||||||||||||||||| ||||| ||||| ||||| ||||||||||||  |   || ||  |   ||| |   | | |||||  ||  ||| ||   |||| |||||  ||| |||||  ||||   | |               | ||| | ||| ||| | | || |    |  |||| || |  | |     || |||||||||||||||||| | || ||
ATGACCCATCACAGAAGAACACAATGCTCATTTTGAAATTTCTTCCATTTATGATTGGCTGGTTCTCTTTGTCAGTGCCATCAGGATTGTCTATTTACTGgtatgtgcatcagtctcttttgttctaatgggaaatatgttcagatatttgtttcacattatactgctagttgcttcatacaagatcacgagttcacagccccttgcccccttccctgttcactgaattttacaatcaaattcatgattattttgtaatttgtattgactccatgttttccattag

upper sequence: LOC_Os01g05800.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G110063_T01 (Zea mays), 5'ss of exon 9
ATGATCCATCGCAGAAGAACACACTGCTTGTTTTGAAATTTCTTCCATTTATGATAGGGTGGTTCTCTTTGTCAGTGCCGTCAGGGTTGTCCATTTATTGgtatgtgcat-----ttgctattagttgtatgagtgttt---cagtcatgttccatgctatagtgcta--tgcctcata-gagattgtgggactcctccactgctca---ttaact---tcttgcaattgatcaaatccaata-------tgtgtattgactccatgtttgctatcag
|||| || || |||||||||||||| || |||||||||||||||||||||||||| || |  ||||||||||||||||| ||||| ||||| |||||||||||||| |||     ||  |  ||  |  |    ||||     | || |||| |||  |||   ||||  ||| ||| |  ||||  |||  | ||| | ||| |||   || |||   | || | ||| |||||||||   |       | |||||||||||||||||| | || ||
ATGACCCGTCACAGAAGAACACACTCCTCGTTTTGAAATTTCTTCCATTTATGATTGGCTATTTCTCTTTGTCAGTGCCATCAGGATTGTCTATTTATTGgtatgttcatgtcttttttttctaactacaaatatgttcatatattcttgttgcatattatgtcgctagttgcttcaaacaagatcatgg--ccccttccctgttcagttttcactgaattttacgattaatcaaatccgcaagtttttttttgtattgactccatgttttccattag
















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|29615536|gb|CB620548.1|CB620548
EST:     ATGATAGGGTGGTTCTCTTTGTCAGTGCCGTCAGGGTTGTCCATTTATTG                         GTTCACAAATAATATCCTCAGCACAGCCCAGCAAGTTTGGTTACGGAAACT
genomic: ATGATAGGGTGGTTCTCTTTGTCAGTGCCGTCAGGGTTGTCCATTTATTGgtatgtgcat ... ttgctatcagGTTCACAAATAATATCCTCAGCACAGCCCAGCAAGTTTGGTTACGGAAACT
EST: gi|66920591|gb|CX107439.1|CX107439
EST:     ATGATAGGGTGGTTCTCTTTGTCAGTGCCGTCAGGGTTGTCCATTTATTG                         GTTCACAAATAATATCCTCAGCACAGCCCAGCAAGTTTGGTTACGGAAACT
genomic: ATGATAGGGTGGTTCTCTTTGTCAGTGCCGTCAGGGTTGTCCATTTATTGgtatgtgcat ... ttgctatcagGTTCACAAATAATATCCTCAGCACAGCCCAGCAAGTTTGGTTACGGAAACT
EST: gi|29620327|gb|CB625339.1|CB625339
EST:     ATGATAGGGTGGTTCTCTTTGTCAGTGCCGTCAGGGTTGTCCATTTATTG                         GTTCACAAATAATATCCTCAGCACAGCCCAGCAAGTTTGGTTACGGAAACT
genomic: ATGATAGGGTGGTTCTCTTTGTCAGTGCCGTCAGGGTTGTCCATTTATTGgtatgtgcat ... ttgctatcagGTTCACAAATAATATCCTCAGCACAGCCCAGCAAGTTTGGTTACGGAAACT
EST: gi|58694651|gb|CK083338.1|CK083338
EST:     ATGATAGGGTGGTTCTCTTTGTCAGTGCCGTCAGGGTTGTCCATTTATTG                         GTTCACAAATAATATCCTCAGCACAGCCCAGCAAGTTTGGTTACGGAAACT
genomic: ATGATAGGGTGGTTCTCTTTGTCAGTGCCGTCAGGGTTGTCCATTTATTGgtatgtgcat ... ttgctatcagGTTCACAAATAATATCCTCAGCACAGCCCAGCAAGTTTGGTTACGGAAACT
EST: gi|38482468|gb|CF966504.1|CF966504
EST:     ATGATAGGGTGGTTCTCTTTGTCAGTGCCGTCAGGGTTGTCCATTTATTG                         GTTCACAAATAATATCCTCAGCACAGCCCAGCAAGTTTGGTTACGGAAACT
genomic: ATGATAGGGTGGTTCTCTTTGTCAGTGCCGTCAGGGTTGTCCATTTATTGgtatgtgcat ... ttgctatcagGTTCACAAATAATATCCTCAGCACAGCCCAGCAAGTTTGGTTACGGAAACT