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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGACAATGTACCAATTCCACTTCTTTTCATGAGAACAGTTATTCAAGCACTTGATGCTTTCCCAGCTTTGgtacagtgatttccattctaatttatgcgcaatttatatatcttgttatatgttggaaggttatttgctatcacttttcatatcattttagaatatatga...

Basic information

species Oryza sativa
transcript LOC_Os01g49940.2
intron # 23
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g49940.2 (Oryza sativa), 5'ss of exon 23
lower sequence: GRMZM2G466139_T01 (Zea mays), 5'ss of exon 20
GTTGACAATGTACCAATTCCACTTCTTTTCATGAGAACAGTTATTCAAGCACTTGATGCTTTCCCAGCTTTGgtacagtgatttccattctaattta-tgcgcaat---ttatatatcttgttatatgttggaaggttatttgctatcacttttcatatcattttagaatatatga
|||||||   |||||||||| |||||||| |||||||||||||||||||| ||||||||||| || |||||||||   ||||||  ||| | | ||| | | |||    || ||| | ||  ||| |||||| |      ||| |   | ||    |||  ||||  |||      
GTTGACAGAATACCAATTCCTCTTCTTTTTATGAGAACAGTTATTCAAGCGCTTGATGCTTTTCCTGCTTTGgtatgctgatttttattttgagttaatacacaacgaattttatctgtttatatttgttggtaaaaagcttggttgtagttcatctatttttttgtaatca----

upper sequence: LOC_Os01g49940.2 (Oryza sativa), 5'ss of exon 23
lower sequence: GLYMA06G09580.1 (Glycine max), 5'ss of exon 21
GTTGACAATGTACCAATTCCACTTCTTTTCATGAGAACAGTTATTCAAGCACTTGATGCTTTCCCAGCTTTGgtacagtgatttcca---ttctaat-ttatgcgcaatttatatatcttgttatatgttggaaggttatttgctatcacttttcatatcattttagaatatatga
|||||  |    ||| | || || ||||||||||||||||||||||| ||| |||||||||| || ||  ||||| | | ||||      || |  | |||||  || | |    ||  || ||||| ||   || || |    | | | |||| | |   |  |  ||   ||| 
GTTGATCAAACTCCACTGCCGCTACTTTTCATGAGAACAGTTATTCAGGCAATTGATGCTTTTCCTGCACTGgtaaatttatttttcaacttttggtattatg-acattgtgctcattatgctatattttc--agtttctgcctttttatttttaagaaattggttcaaccaatg-

upper sequence: LOC_Os01g49940.2 (Oryza sativa), 5'ss of exon 23
lower sequence: GLYMA04G09480.1 (Glycine max), 5'ss of exon 22
GTTGACAATGTACCAATTCCACTTCTTTTCATGAGAACAGTTATTCAAGCACTTGATGCTTTCCCAGCTTTGgtacagtgatttc----cattctaatttatgcgcaatttatatatcttgttatatgttggaaggttatttgctatcacttttcatatcattttagaatatatga
|||||  |    ||  | || || ||||||||||||||||||||||| ||| |||||||||| || ||  ||||| | |  |||     ||||     ||||| | | |||    |    | ||||| ||  |   || |    | | | |||| |||   |  |  ||    || 
GTTGATCAAACTCCGCTGCCTCTACTTTTCATGAGAACAGTTATTCAGGCAATTGATGCTTTTCCTGCAATGgtaaatttctttttcaacatttgttattatgag-attttgctcactaagctatattttcaa--tttctgcctttttatttttaataaattggtttaaccactg-

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|29644685|gb|CB649692.1|CB649692
EST:     TTCTTTTCATGAGAACAGTTATTCAAGCACTTGATGCTTTCCCAGCTTTG                         GTTGATTTTGTCATGGAAATACTCTCCAGGCTTGTTAATAAGCAG
genomic: TTCTTTTCATGAGAACAGTTATTCAAGCACTTGATGCTTTCCCAGCTTTGgtacagtgat ... ttttcatcagGTTGATTTTGTCATGGAAATACTCTCCAGGCTTGTTAATAAGCAG
EST: gi|27577961|gb|CB000656.1|CB000656
EST:     TTCTTTTCATGAGAACAGTTATTCAAGCACTTGATGCTTTCCCAGCTTTG                         GTTGATTTTGTCATGGAAATACTCTCCAGGCTTGTTAATAAGCAG
genomic: TTCTTTTCATGAGAACAGTTATTCAAGCACTTGATGCTTTCCCAGCTTTGgtacagtgat ... ttttcatcagGTTGATTTTGTCATGGAAATACTCTCCAGGCTTGTTAATAAGCAG
EST: gi|87004655|gb|CI300977.1|CI300977
EST:     TTCTTTTCATGAGAACAGTTATTCAAGCACTTGATGCTTTCCCAGCTTTG                         GTTGATTTTGTCATGGAAATACTCTCCAGGCTTGTTAATAAGCAG
genomic: TTCTTTTCATGAGAACAGTTATTCAAGCACTTGATGCTTTCCCAGCTTTGgtacagtgat ... ttttcatcagGTTGATTTTGTCATGGAAATACTCTCCAGGCTTGTTAATAAGCAG
EST: gi|163925961|gb|EG714989.1|EG714989
EST:     TTCTTTTCATGAGAACAGTTATTCAAGCACTTGATGCTTTCCCAGCTTTG                         GTTGATTTTGTCATGGAAATACTCTCCAGGCTTGTTAATAAGCAG
genomic: TTCTTTTCATGAGAACAGTTATTCAAGCACTTGATGCTTTCCCAGCTTTGgtacagtgat ... ttttcatcagGTTGATTTTGTCATGGAAATACTCTCCAGGCTTGTTAATAAGCAG
EST: gi|33794819|gb|CF323289.1|CF323289
EST:     TTCTTTTCATGAGAACAGTTATTCAAGCACTTGATGCTTTCCCAGCTTTG                         GTTGATTTTGTCATGGAAATACTCTCCAGGCTTGTTAATAAGCAG
genomic: TTCTTTTCATGAGAACAGTTATTCAAGCACTTGATGCTTTCCCAGCTTTGgtacagtgat ... ttttcatcagGTTGATTTTGTCATGGAAATACTCTCCAGGCTTGTTAATAAGCAG
EST: gi|300215772|gb|HO088398.1|HO088398
EST:     TTCTTTTCATGAGAACAGTTATTCAAGCACTTGATGCTTTCCCAGCTTTG                         GTTGATTTTGTCATGGAAATACTCTCCAGGCTTGTTAATAAGCAG
genomic: TTCTTTTCATGAGAACAGTTATTCAAGCACTTGATGCTTTCCCAGCTTTGgtacagtgat ... ttttcatcagGTTGATTTTGTCATGGAAATACTCTCCAGGCTTGTTAATAAGCAG