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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGCTTCTAGACTCACTTTTGGTAGAAGGAACTTATGAGAAGCTTTATAGCTACCATCATCTTATTAATGGTTTTGCAGTACACATGTCACCCTTACAGgtatttagcatttttatatcttttcttctttcctggtttaagattattatcttggctgaacacagcaatctttcactgtgttag

Basic information

species Oryza sativa
transcript LOC_Os06g48650.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g48650.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G114394_T02 (Zea mays), 5'ss of exon 3
CAAGCTTCTAGACTCACTTTTGGTAGAAGGAACTTATGAGAAGCTTTATAGCTACCATCATCTTATTAATGGTTTTGCAGTACACATGTCACCCTTACAGgtatttagcat-----tttt------------atatcttttcttctttcctggtttaagattattatcttggctgaacacagcaatctttcactgtgttag
|||||| |||||||| ||||| |||||||||||||| |||||||||||||||||||||||||| || ||||| || ||||| |||||||| ||  | ||||||||| |  |     ||||            || || |||   |  |    |||   | || ||||||||  ||||||| |     |||  |||||  ||
CAAGCTGCTAGACTCGCTTTTAGTAGAAGGAACTTACGAGAAGCTTTATAGCTACCATCATCTCATCAATGGCTTCGCAGTTCACATGTCGCCACTGCAGgtatttggtgtcccgattttgcttagaggcgcatgtccttttccccatttgagttcttggttgttatcttgtttgaacactgtg---ttttgctgtggcag

upper sequence: LOC_Os06g48650.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G099452_T02 (Zea mays), 5'ss of exon 3
CAAGCTTCTAGACTCACTTTTGGTAGAAGGAACTTATGAGAAGCTTTATAGCTACCATCATCTTATTAATGGTTTTGCAGTACACATGTCACCCTTACAGgtatttagcatttt-----------------tatatcttttcttctttcctggtttaagattattatcttggctgaacacagcaatctttcactgtgttag
|||||| |||||||||| ||| ||||||||||| ||||||||||||||||||||||| |||||||| ||||| |||||||| ||||||||  |  | ||||||||| |  | |                   || || |||  ||  |    |||   | || || | |||  | |||  ||   ||||   ||||   ||
CAAGCTCCTAGACTCACATTTAGTAGAAGGAACGTATGAGAAGCTTTATAGCTACCACCATCTTATCAATGGCTTTGCAGTTCACATGTCGTCACTGCAGgtatttggagtctcaattctgcttagaggcacatgtccttttctcgatttcagttcttggttgttgttttgtttcaacgtagtgttctt---ctgtcccag
















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|58656028|gb|CK044708.1|CK044708
EST:     GCTACCATCATCTTATTAATGGTTTTGCAGTACACATGTCACCCTTACAG                         GCTGAATTCCTAAGGAAAGCCCCAGGAGTAAAGCATGTGGAGAGAGATATG
genomic: GCTACCATCATCTTATTAATGGTTTTGCAGTACACATGTCACCCTTACAGgtatttagca ... actgtgttagGCTGAATTCCTAAGGAAAGCCCCAGGAGTAAAGCATGTGGAGAGAGATATG
EST: gi|58607175|gb|CK035208.1|CK035208
EST:     GTCACCCTTACAG                         GCTGAATTCCTAAGTGAAAGCCCCAGGAGTAAAGCATGTGGAGAGAGATAT
genomic: GTCACCCTTACAGgtatttagca ... actgtgttagGCTGAATTCCTAAG-GAAAGCCCCAGGAGTAAAGCATGTGGAGAGAGATAT