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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATCCGATTCTGTCACGCATCATAGATGGGACACTCAGTTATGATAGAAATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAGgtaaggcccctactctaatggttagttccaatttattggttcatttctctgtgtttgataagattttgcctctgctgtgcatttcaatattatatctaaactgtgctgcttatagcttatcaaactactcttgctcataaagatgcaacttttatgcag

Basic information

species Oryza sativa
transcript LOC_Os01g08700.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g08700.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G107101_T05 (Zea mays), 5'ss of exon 6
GCATCCGATTCTGTCACGCATCATAGATGGGACACTCAGTTATGATAGAAATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAGgtaaggcccctactctaatggttagttccaatttattggttcatttctctgtgtttgataagattttgcctctgctgtgcatttcaatattatatctaaactgtgctgcttatagcttatcaaactactcttgctcataaagatgcaacttttatgcag
 ||||| ||||| |||||||||||||||||||| ||  | ||||||||| |||||  ||| ||||  ||||||||||||||||| ||||||| ||||||||| |||||  || | |  |||| ||||        || |||  | ||| |||||    |  ||  ||  || | || | |       | ||     | |||  |  ||   | ||                                            
ACATCCAATTCTTTCACGCATCATAGATGGGACGCTGTGCTATGATAGACATGGTCCCCCATTCAGTTCCTTCATCTCTTTATTCAGCCATAATTCTGAGgtgaggccattagtatcgtggtcagtt--------ttagttgttctctttgtgtcgactttgagattcgctattctatac-------tgttgctcattaacaattttgaccacag--------------------------------------------

upper sequence: LOC_Os01g08700.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM5G844173_T01 (Zea mays), 5'ss of exon 5
GCATCCGATTCTGTCACGCATCATAGATGGGACACTCAGTTATGATAGAAATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAGgtaaggcccctactctaatggttagttccaatttattggttcatttctctgtgtttgataagattttgcctctgctgtgcatttcaatattatatctaaactgtgctgcttatagcttatcaaactactcttgctcataaagatgcaacttttatgcag
 ||||| ||||| |||| ||||||||||||||||||  | ||||||||  |||||   || ||||  ||||||||||||||||||||||||||||||||||| |||||  |||          |||| || ||     ||||   ||| ||||||||    || ||||  | |    | |  ||| ||| | | ||| |       |  | |   |                                           
ACATCCAATTCTTTCACCCATCATAGATGGGACACTGTGCTATGATAGGCATGGTCCTCCATTCAGCTCCTTCATCTCTTTATTTAGCCATACTTCTGAGgtgaggccattac----------agtttcagtt-----gttc---tctttgtgtttgtgttgactttgagttt----tactattctatactgtttctcattaacaattttcaccacag-----------------------------------------
















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|29667209|gb|CB663484.1|CB663484
EST:     ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAG                         AAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
genomic: ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAGgtaaggcccc ... ttttatgcagAAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
EST: gi|29636922|gb|CB641931.1|CB641931
EST:     ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAG                         AAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
genomic: ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAGgtaaggcccc ... ttttatgcagAAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
EST: gi|88369882|gb|CI680559.1|CI680559
EST:     ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAG                         AAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
genomic: ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAGgtaaggcccc ... ttttatgcagAAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
EST: gi|29646260|gb|CB651267.1|CB651267
EST:     ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAG                         AAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
genomic: ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAGgtaaggcccc ... ttttatgcagAAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
EST: gi|29636923|gb|CB641932.1|CB641932
EST:     ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAG                         AAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
genomic: ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAGgtaaggcccc ... ttttatgcagAAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
EST: gi|88587781|gb|CI705554.1|CI705554
EST:     ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAG                         AAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
genomic: ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAGgtaaggcccc ... ttttatgcagAAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
EST: gi|88361618|gb|CI680183.1|CI680183
EST:     ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAG                         AAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
genomic: ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAGgtaaggcccc ... ttttatgcagAAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
EST: gi|88369175|gb|CI680281.1|CI680281
EST:     ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAG                         AAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
genomic: ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAGgtaaggcccc ... ttttatgcagAAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
EST: gi|58590243|gb|CF988551.1|CF988551
EST:     ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAG                         AAAGAGTACGCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
genomic: ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAGgtaaggcccc ... ttttatgcagAAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
EST: gi|29642016|gb|CB647023.1|CB647023
EST:     ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAG                         AAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
genomic: ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAGgtaaggcccc ... ttttatgcagAAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
EST: gi|88454127|gb|CI694894.1|CI694894
EST:     ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAG                         AAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT
genomic: ATGGTTTCCCGTTCATGTCCTTCATCTCTTTATTTAGCCATACTTCTGAGgtaaggcccc ... ttttatgcagAAAGAGTACTCGGAGCAGTGGGCCTTGGCCTGTGGAGAAATTCTTAGAGTT