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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACATTCTCAGGAGTGAACCAGTTATTCTATCCTCAGACATGGGCTTTTGCCCTAATTGTAGCCACCTGTGTGAGCACCCAGATAAACTATCTAAATAAGgtacatgaagagatttaacttgagtttaagggatcttctaacagcttgtctcattcatacaacttcatcgcacctgtccttaaaagaatcttcactagct...

Basic information

species Oryza sativa
transcript LOC_Os11g09140.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g09140.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G104147_T02 (Zea mays), 5'ss of exon 6
AACATTCTCAGGAGTGAACCAGTTATTCTATCCTCAGACATGGGCTTTTGCCCTAATTGTAGCCACCTGTGTGAGCACCCAGATAAACTATCTAAATAAGgtacatgaagagatt---taacttgagtttaagggatctt-----ctaacagcttgtctcattcatacaacttcatcgcacctgtccttaaaagaatcttcactagct
|||||||||||||   || || ||||||||||||||||| ||||| |||||  |||||||||| ||||||||||||||||| || |||||||| |||||||||  ||    | ||   ||   |   |||    ||| |        ||||  || ||| |  ||| ||| ||     ||||   | | | ||| || |   ||    
AACATTCTCAGGAACAAATCAATTATTCTATCCTCAGACTTGGGCCTTTGCAGTAATTGTAGCTACCTGTGTGAGCACCCAAATTAACTATCTGAATAAGgtaattgttctgtttcgttactctttttttttaagatttaaaaagtaaacaatttttctgaaacatgcaagttt----cacc-accatgataagcatatgagctc---

upper sequence: LOC_Os11g09140.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G129268_T01 (Zea mays), 5'ss of exon 6
AACATTCTCAGGAGTGAACCAGTTATTCTATCCTCAGACATGGGCTTTTGCCCTAATTGTAGCCACCTGTGTGAGCACCCAGATAAACTATCTAAATAAGgtacatgaagagatttaac----ttgagtttaagggatcttctaacagcttgtctcattcatacaacttcatcgcacctgtccttaaaagaatcttcactagct
|||||| ||||||   ||||| ||||||||||||||||| ||||| ||||| || |||||||| |||||||||||||||||||| ||||||||||||||||||  ||      |||  |    ||   ||||    |   |  |    ||  ||  ||| | | |     ||    |   |  |   ||  ||      |    
AACATTGTCAGGAACAAACCAATTATTCTATCCTCAGACTTGGGCCTTTGCACTGATTGTAGCTACCTGTGTGAGCACCCAGATTAACTATCTAAATAAGgtaattgttctattttgccactcttatttttattatagactacattgactgatcatatttagaaatagaaattatccagtttttctgaaacatgcaagtt----
















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|33678556|gb|CF306795.1|CF306795
EST:     CCCTAATTGTAGCCACCTGTGTGAGCACCCAGATAAACTATCTAAATAAG                         GCATTGGACACCTTTAATACAGCAGTTGTCTCACCAATATATTACGTGATG
genomic: CCCTAATTGTAGCCACCTGTGTGAGCACCCAGATAAACTATCTAAATAAGgtacatgaag ... tgacttgcagGCATTGGACACCTTTAATACAGCAGTTGTCTCACCAATATATTACGTGATG