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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAAAGTTGGCTCGGCTTGTGACATATTTAGTTTTGGATGTCTAGCTTATCACCTGGTTGCTCGTAGACCACTTCTGGATTGCCATAACAATGTGAAAATGgtatgtcttgaatctggattttgacattttacctattcttaatgcttttttttttgaattttaattacctgatctctgaactgctgttggtacatgtatg...

Basic information

species Oryza sativa
transcript LOC_Os01g42950.3
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g42950.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G061681_T02 (Zea mays), 5'ss of exon 4
TAAAGTTGGCTCGGCTTGTGACATATTTAGTTTTGGATGTCTAGCTTATCACCTGGTTGCTCGTAGACCACTTCTGGATTGCCATAACAATGTGAAAATGgtatgtcttgaa--tctggattttgacattttacctattcttaatgcttttttttttgaatt--ttaattacctgatctctgaactg---ctgttggtacatgtatg--------------------------------------------------------------------------
|||||||||||| ||||||||||| ||||| ||||||||||||||||| || |||||||||||||||||||||||||| |||||||||||||| |||||||||||| || ||  ||||  |  || ||||| ||| | | |  ||  | |  |||| | ||   | |||  ||| | || | |  |     | | | | ||  | ||                                                                          
TAAAGTTGGCTCTGCTTGTGACATGTTTAGCTTTGGATGTCTAGCTTACCATCTGGTTGCTCGTAGACCACTTCTGGACTGCCATAACAATGTTAAAATGgtatgttttaaacatctgattgatggcattt-acccaatatagat-ttgtccttttagcatcaatcaatggcctcaactgtaattttactttctcgcttcagttttgcatgtagatcatcttgtttgggttgtatccacatcctacagcacctgttctgatgttttcccctatttttgcag
















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|58665583|gb|CK054269.1|CK054269
EST:     ACCTGGTTGCTCGTAGACCACTTCTGGATTGCCATAACAATGTGAAAATG                         TATATGAATTCCTTGACGTATTTAACAAGTGAAGCCTTTTCTAATATTCCT
genomic: ACCTGGTTGCTCGTAGACCACTTCTGGATTGCCATAACAATGTGAAAATGgtatgtcttg ... tgttttgcagTATATGAATTCCTTGACGTATTTAACAAGTGAAGCCTTTTCTAATATTCCT
EST: gi|58653744|gb|CK042424.1|CK042424
EST:     ACCTGGTTGCTCGTAGACCACTTCTGGATTGCCATAACAATGTGAAAATG                         TATATGAATTCCTTGACGTATTTAACAAGTGAAGCCTTTTCTAATATTCCT
genomic: ACCTGGTTGCTCGTAGACCACTTCTGGATTGCCATAACAATGTGAAAATGgtatgtcttg ... tgttttgcagTATATGAATTCCTTGACGTATTTAACAAGTGAAGCCTTTTCTAATATTCCT