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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCCAAATCCTGAGGACAAAACTGCAATGAAAGCCATTACACAAGCTGTGGCCGATAACAAGGCAGACTTGGGCATCATATTTGATACTGATGTTGACAGgtataaaatatatagccattgaaattatacaggttcgtaatgcacaaccctaaaattgtgccgtttgcag

Basic information

species Oryza sativa
transcript LOC_Os07g26610.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g26610.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G069676_T02 (Zea mays), 5'ss of exon 9
TTCCAAATCCTGAGGACAAAACTGCAATGAAAGCCATTACACAAGCTGTGGCCGATAACAAGGCAGACTTGGGCATCATATTTGATACTGATGTTGACAGgtataaaatatatagccattgaaattatacaggttcgtaatgcacaacccta-aaattgtgccgtttgcag
|||| || |||||||||||||| ||||||||    ||||||||||| ||    ||||||||||||||||| |||||||||||||||||||||||||||||||| | | ||  ||  | ||||  || | |   |   ||||         |  |||   | | ||||||||
TTCCCAACCCTGAGGACAAAACCGCAATGAAGTTTATTACACAAGCAGTTCTTGATAACAAGGCAGACTTAGGCATCATATTTGATACTGATGTTGACAGgtacata-tagctactctttgaggttctgctcatgtctaataggtcgtagtctaaaccatacagtttgcag

upper sequence: LOC_Os07g26610.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA10G35490.2 (Glycine max), 5'ss of exon 9
TTCCAAATCCTGAGGACAAAACTGCAATGAAAGCCATTACACAAGCTGTGGCCGATAACAAGGCAGACTTGGGCATCATATTTGATACTGATGTTGACAGgtataaaatatatagc----------cattgaaatta-tacaggttcgtaatgcac-aaccctaaaattgtgccgtttgcag
| |||||||||||||||||||| ||||||||||| || || ||||| ||    |||||||| || ||  | || || || |||||||||||||| ||||||||   |   |||  |          || |||  | | ||| | ||   |||  |  || | | ||    |  | | || ||
TCCCAAATCCTGAGGACAAAACAGCAATGAAAGCTATAACCCAAGCAGTCCTTGATAACAAAGCTGATCTTGGAATTATCTTTGATACTGATGTGGACAGgtaaggatcttattactaatcagtttcactgaggtgactactgtttttaaatttattaagcatcaatcactttcatctgtag

upper sequence: LOC_Os07g26610.1 (Oryza sativa), 5'ss of exon 10
lower sequence: AT5G17530.3 (Arabidopsis thaliana), 5'ss of exon 10
TTCCAAATCCTGAGGACAAAACTGCAATGAAAGCCATTACACAAGCTGTGGCCGATAACAAGGCAGACTTGGGCATCATATTTGATACTGATGTTGACAGgtataaaatata--tagccattgaaattatacaggttcgtaatgcacaaccctaaaattgtgccgtttgcag
| || ||||| || || ||  | |||||| |||| || ||  | |||||    ||||| ||||| || ||||| ||||| ||||||||||||||||| |||||  || |  |  || |  |   | |||      ||  | | |     | || | |  |     | || ||
TCCCTAATCCGGAAGATAAGGCGGCAATGGAAGCTATAACCAAGGCTGTTCTTGATAATAAGGCTGATTTGGGTATCATCTTTGATACTGATGTTGATAGgtagtaactgcagctatctctgttacttaggagaatttatta-gattgcctcttacaaagatttttgtgaag

upper sequence: LOC_Os07g26610.1 (Oryza sativa), 5'ss of exon 10
lower sequence: PP1S152_87V6.2 (Physcomitrella patens), 5'ss of exon 10
TTCCAAATCCTGAGGACAAAACTGCAATGAAAGCCATTACACAAGCTGTGGCCGATAACAAGGCAGACTTGGGCATCATATTTGATACTGATGTTGACAGgtataa--aatatatagccattgaaattatacaggttcgtaatgcacaaccctaaaattgtgccgtttgcag----------------------------------------------------------------------------------------
| ||||||||||| || || |  |||||| |  | |||||  |||| ||    ||  | || ||||| ||||||||||||||||| ||||| ||||| ||||| |      |  |  |   || |  |       | | | | |||      |    |  |  | ||                                                                                             
TCCCAAATCCTGAAGATAAGAAGGCAATGGAGTCTATTACCAAAGCCGTCCTAGACCAAAAAGCAGATTTGGGCATCATATTTGACACTGACGTTGATAGgtaaagttggaacctttctgctggatcttcttgtctccttcacgcattcatgtggtctactctcattgatgacgtggtggatcctctttcattgctcactgaattgacatactggctttatttttttaataatcacatatttctttgtattatattgcag

upper sequence: LOC_Os07g26610.1 (Oryza sativa), 5'ss of exon 10
lower sequence: EFJ15375 (Selaginella moellendorffii), 5'ss of exon 8
TTCCAAATCCTGAGGACAAAACTGCAATGAAAGCCATTACACAAGCTGTGGCCGATAACAAGGCAGACTTGGGCATCATATTTGATACTGATGTTGACAGgtataaaatatatagccattgaaattatacaggttcgtaatgcacaaccctaaaattgtgccgtttgcag
|||| |||||||||||||| |  |||||| ||||| | |||   |||||   | |  ||||||| |||||||| ||||||||||| || ||||||||||||| |    | |||   | ||      || |  |||| |   | |  | | |     | |           
TTCCCAATCCTGAGGACAAGAAAGCAATGGAAGCCGTGACAAGTGCTGTTCTCAAGCACAAGGCGGACTTGGGGATCATATTTGACACGGATGTTGACAGgtttc---tttattttcgttt---ccatccttgttcttttggaagtaacttttgcgtatag---------

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|29613465|gb|CB618478.1|CB618478
EST:     GCTGATAACAAGGCAGACTTGGGCATCATATTTGACACTGATGTTGACAG                         GTCTGCTGCTGTTGATTCAAGTGGTCGTGAGTTAAACCGTAACAGATTGAT
genomic: GCCGATAACAAGGCAGACTTGGGCATCATATTTGATACTGATGTTGACAGgtataaaata ... ccgtttgcagGTCTGCTGCTGTTGATTCAAGTGGTCGTGAGTTAAACCGTAACAGATTGAT