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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCATGGATAACCACTGTTGCTGCTGGAGTTGATGACCGCAGATACAAAAATCATTTGGTGCTAGGAAATGGGAAACTTCTTCCTGGACTTGGTGTATCACgtaagttctgtttattcatgtattttagctcaaattttggttttctattactacatgtatggtatatgcattcatgggcaacaaaaattgtacaaaatga...

Basic information

species Oryza sativa
transcript LOC_Os06g48650.3
intron # 6
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 6
lower sequence: GRMZM2G099452_T02 (Zea mays), 5'ss of exon 7
CCATGGATAACCACTGTTGCTGCTGGAGTTGATGACCGCAGATACAAAAATCATTTGGTGCTAGGAAATGGGAAACTTCTTCCTGGACTTGGTGTATCACgtaagttctgtttattcatgtattttagctcaa--attttggttt-tctattactac-atgtatggtatatgcattcatgggcaacaaaaattgtacaaaatga
||||||||||||||||||||||||||||||||||||||||||||||| ||||||||    ||||||||||| |||||| || |||||||||| ||||| ||||||| || ||| | |||  |  | | |  ||  ||  ||   | | | | | |||  |||   | ||||  | |  ||      | || |||| ||||||  
CCATGGATAACCACTGTTGCTGCTGGAGTTGATGACCGCAGATACAAGAATCATTTAACACTAGGAAATGGAAAACTTATTTCTGGACTTGGAGTATCTCgtaagtcct-tttctacatacacatgaacaaaatcataatgaactatttgtcagtactgtgtgcagcatattgaattgtgtattgtataa-ttgtgcaaaat--

upper sequence: LOC_Os06g48650.3 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G114394_T02 (Zea mays), 5'ss of exon 7
CCATGGATAACCACTGTTGCTGCTGGAGTTGATGACCGCAGATACAAAAATCATTTGGTGCTAGGAAATGGGAAACTTCTTCCTGGACTTGGTGTATCACgtaagttctgtttattcatgtattttagctcaa--attttggttt-tctattactac-atgtatggtatatgcattcatgggcaacaaaaattgtacaaaatga
||||||||||| ||||||||||||||||||||||||||||||||||| ||||||||    ||||||||||| ||||||||  |||| ||||| |||||||||||||  | ||| |   |  || | | |  ||  ||  ||  || | | | | |||  |||   | || |  | |  |||     | || |||| |||||   
CCATGGATAACTACTGTTGCTGCTGGAGTTGATGACCGCAGATACAAGAATCATTTAACACTAGGAAATGGAAAACTTCTCTCTGGGCTTGGAGTATCACgtaagtatt-tttctaagtacatgtcaacaaaatcatgatgaattatttgtcagtactgtgtgcagcattttgaattgtggattgtagaa-ttgtgcaaaaa--

upper sequence: LOC_Os06g48650.3 (Oryza sativa), 5'ss of exon 6
lower sequence: AT4G30020.1 (Arabidopsis thaliana), 5'ss of exon 7
CCATGGATAACCACTGTTGCTGCTGGAGTTGATGACCGCAGATACAAAAATCATTTGGTGCTAGGAAATGGGAAACTTCTTCCTGGACTTGGTGTATCACgtaagttctgttt-------attcatgtattttagctcaaattttggttttctattactacatgtatggtatatgcattcatgggcaacaaaaattgtacaa-aatga--------------------
|| |||||||| ||||| ||||||| | ||||||| |||||||||||||||||| ||   || |||||||| ||| | ||| | ||| | ||  |||| ||||||||     |       ||  |  ||| |     || |   | ||  | ||||     |   |  ||   |  |||| || |   |   | | ||      ||||                    
CCTTGGATAACTACTGTGGCTGCTGCAATTGATGATCGCAGATACAAAAATCATCTGACTCTTGGAAATGGTAAAATGCTTGCCGGAATAGGATTATCTCgtaagtttctcctttctctgatctagatatgtagatccacacaatagtaatttatttaagaagagactgttagtttattc-tgagtctctctattggttttttgatgaatcattatgcgtttgtgcag

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|66913003|gb|CX099851.1|CX099851
EST:     TCATTTGGTGCTAGGAAATGGGAAACTTCTTCCTGGACTTGGTGTATCAC                         CTGCAACCCATGAGAATAAATCATTCAGCCTGATTTCTGCGGCTGATGCTC
genomic: TCATTTGGTGCTAGGAAATGGGAAACTTCTTCCTGGACTTGGTGTATCACgtaagttctg ... ttggctacagCTGCAACCCATGAGAATAAATCATTCAGCCTGATTTCTGCGGCTGATGCTC
EST: gi|58684518|gb|CK073205.1|CK073205
EST:     TCATTTGGTGCTAGGAAATGGGAAACTTCTTCCTGGACTTGGTGTATCAC                         CTGCAACCCATGAGAATAAATCATTCAGCCTGATTTCTGCGGCTGATGCTC
genomic: TCATTTGGTGCTAGGAAATGGGAAACTTCTTCCTGGACTTGGTGTATCACgtaagttctg ... ttggctacagCTGCAACCCATGAGAATAAATCATTCAGCCTGATTTCTGCGGCTGATGCTC