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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAAGAATCAGAGATTGGCATGTGGGAGTCCATAGCATGGCTCGCGATGTTGACATTATGGGTGTCTATTCTTTCTGAATACCTGGTTAATGCCATTGAGgtattccttctcttctaatttagaatgacagcacaaaaaaaaagtagctgttcttaatatgtgcaactgacaaatgattttttttggcctgttaaacttg...

Basic information

species Oryza sativa
transcript LOC_Os04g55940.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g55940.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G040017_T02 (Zea mays), 5'ss of exon 7
TGAAGAATCAGAGATTGGCATGTGGGAGTCCATAGCATGGCTCGCGATGTTGACATTATGGGTGTCTATTCTTTCTGAATACCTGGTTAATGCCATTGAGgtattccttctcttctaatttagaatgacagcacaaaaaaaaagtagctgttcttaatatgt-gcaactgacaaatgattttttttggcctgttaaacttg----
||||||| | |||||||||||||||||| |  || ||||||| ||| | || ||| | ||||||||| |||||||||| ||||| ||||| ||||||||||||||| ||||  || |||| |  | || ||   || |||||   |||| || || || ||| |||| ||  || |  ||     | || |  || | |||    
TGAAGAAGCTGAGATTGGCATGTGGGAGGCAGTAACATGGCTTGCGGTTTTAACACTCTGGGTGTCTTTTCTTTCTGAGTACCTAGTTAACGCCATTGAGgtattc-ttcttctccaattcaacaagaaag---aataaaaagtcagcttttattcatctgtagcaagtgg-aacttgttaaaggtagcttcctacagttgacag

upper sequence: LOC_Os04g55940.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G143356_T01 (Zea mays), 5'ss of exon 8
TGAAGAATCAGAGATTGGCATGTGGGAGTCCATAGCATGGCTCGCGATGTTGACATTATGGGTGTCTATTCTTTCTGAATACCTGGTTAATGCCATTGAGgtattccttctcttctaatttagaatgacagcacaaaaaaaaagtagctgttcttaatatgtgcaactgacaaatgattttttttggcctgttaaacttg-------
||||||| | |||||||||||||||||| |  || ||||||| ||| |||| ||||| ||||||||| |||||||||| ||||| ||||| ||||||||||||||| |     ||||||| |  | || || | ||||||     |||| || ||||| |||  || ||| || |  ||     | || |  |||| |||       
TGAAGAAGCTGAGATTGGCATGTGGGAGGCAGTAACATGGCTTGCGGTGTTAACATTCTGGGTGTCTTTTCTTTCTGAGTACCTAGTTAACGCCATTGAGgtattctt----ctctaattcaacaagaaaggataaaaaag--tcagcttttattaatctgtaaaagtga-aattcgttaaaggtagctttctaaagttgacagaca
















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|286840|gb|D15647.1|D15647
EST:     TGACATTATGGGGGTCTATTCTTTCTGAATACCTGGTTAATGCCATTGAG                         GGGGCATCTGATTCACTGAACCTACCCGTGGCTTTTATCAGTGTNATNTTG
genomic: TGACATTATGGGTGTCTATTCTTTCTGAATACCTGGTTAATGCCATTGAGgtattccttc ... ttgctatcagGGGGCATCTGATTCACTGAACCTACCCGTGGCTTTTATCAGTGTTATTTTG