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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGAAGATGAGCCCATTGGCGATAAAACAAGGACAGTTAGCAAGCTTTGTGGAGCCCCTGTACACTGGCATGCTTCCCTTGAACAGGTTCCTTCAGGATgtatggagttctttcattgataactttgcttctaatgaacattaactattgttgaaggctcataagcacttgtattatcaactttcacacttggtaaaat...

Basic information

species Oryza sativa
transcript LOC_Os01g40620.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g40620.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G086052_T03 (Zea mays), 5'ss of exon 5
TGTGAAGATGAGCCCATTGGCGATAAAACAAGGACAGTTAGCAAGCTTTGTGGAGCCCCTGTACACTGGCATGCTTCCCTTGAACAGGTTCCTTCAGGATgtatggagttcttt-cattgataactttgcttctaatgaacattaactattg--ttgaaggctcataagcacttgtat-tatcaactttcacacttggtaaaat
||||||||||| |   |||| |||   |  || |||||||||||| ||||||||||||||||    |||||||| ||||| ||||||||||| ||||||||||||  | ||||| ||||  ||| ||     ||  |   | || ||  |     |   || |   ||  | |  | | ||   |  || | | |     ||| 
TGTGAAGATGAACATGTTGGTGATGGCAAGAGAACAGTTAGCAAGATTTGTGGAGCCCCTGTTTGTTGGCATGCCTCCCTCGAACAGGTTCCCTCAGGATgtatgaggctcttttcatttctaagttc-taactggtt--ctttcaccttcaaccttttggttttgaattaatgatctctacagaagttgatattatcagaaa-

upper sequence: LOC_Os01g40620.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G498418_T01 (Zea mays), 5'ss of exon 3
TGTGAAGATGAGCCCATTGGCGATAAAACAAGGACAGTTAGCAAGCTTTGTGGAGCCCCTGTACACTGGCATGCTTCCCTTGAACAGGTTCCTTCAGGATgtatggagttcttt-cattgataactttgcttctaatgaacattaactattgttgaaggctcataagcacttgtattatcaacttt--cacacttggtaaaat
||||||||||| |   |||  |||   |  || ||||||||||||||||||| |||||| ||    |||||||| || || ||||||||||| ||| ||||||||  | ||||| ||||   ||||     | | |    ||  |  | | |||      | || | | ||       |  | |||  || |     | |   
TGTGAAGATGAACATGTTGATGATGGCAAGAGAACAGTTAGCAAGCTTTGTGCAGCCCCCGTTTGTTGGCATGCCTCTCTCGAACAGGTTCCCTCAAGATgtatgaggctcttttcatttcgaactggttctttcaccttcaaca-ttttggttttgaattaatgatctctatagaagttgattttgtcataaacactcag--
















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|25800535|gb|CA756496.1|CA756496
EST:     TGGAGCCCCTGTACACTGGCATGCTTCCCTTGAACAGGTTCCTTCAGGAT                         TGCCAACTATAATTATTGCACATGAATTCTATGATGCCTTGCCAATTCATC
genomic: TGGAGCCCCTGTACACTGGCATGCTTCCCTTGAACAGGTTCCTTCAGGATgtatggagtt ... ttctctgcagTGCCAACTATAATTATTGCACATGAATTCTATGATGCCTTGCCAATTCATC
EST: gi|29644655|gb|CB649662.1|CB649662
EST:     TGGAGCCCCTGTACACTGGCATGCTTCCCTTGAACAGGTTCCTTCAGGAT                         TGCCAACTATAATTATTGCACATGAATTCTATGATGCCTTGCCAATTCATC
genomic: TGGAGCCCCTGTACACTGGCATGCTTCCCTTGAACAGGTTCCTTCAGGATgtatggagtt ... ttctctgcagTGCCAACTATAATTATTGCACATGAATTCTATGATGCCTTGCCAATTCATC