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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTCAGGTCCTAGAGAGGTGTTCATGTGCGGAATCGCGCAGTACGTCAACCTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGTgtgagtaaccgaacagatcactccaacttccctccgaactgaacttttcgccatcggtcaggctactaaatttcgtctgtttttctttttctttccgttgtgttgcgaag

Basic information

species Oryza sativa
transcript LOC_Os01g65660.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g65660.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G096407_T03 (Zea mays), 5'ss of exon 2
TTTCAGGTCCTAGAGAGGTGTTCATGTGCGGAATCGCGCAGTACGTCAACCTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGTgtgagtaaccgaacagatcactccaacttccctccgaactgaacttttcgccatcggtcaggctactaaatttcgtctgtttttctttttctttccgttgtgttgcgaag
|  ||||||| || |||||||||||||||||  ||||||||||||| ||||||||||||||||||||||| ||||| ||||| || ||||||||||||| ||||||||||    |||||   | |  ||||  || | |         |||  | | ||   ||   | || ||   ||     |     |                   
TCGCAGGTCCCAGGGAGGTGTTCATGTGCGGGGTCGCGCAGTACGTGAACCTGTGGGGCACCATGGTCGGGTACACCATCACGGCGACCATAAGCATGGCgtgagtaacc----agatc---ctattttcctcccaagccagga----cgctctagctcgttctctgacatgtc-catgcgccgcgcgcgccag----------------

upper sequence: LOC_Os01g65660.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G096407_T01 (Zea mays), 5'ss of exon 3
TTTCAGGTCCTAGAGAGGTGTTCATGTGCGGAATCGCGCAGTACGTCAACCTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGTgtgagtaaccgaacagatcactccaacttccctccgaactgaacttttcgccatcggtcaggctactaaatttcgtctgtttttctttttctttccgttgtgttgcgaag
      |||| || |||||||||||||||||  ||||||||||||| ||||||||||||||||||||||| ||||| ||||| || ||||||||||||| ||||||||||    |||||   | |  ||||  || | |         |||  | | ||   ||   | || ||   ||     |     |                   
------GTCCCAGGGAGGTGTTCATGTGCGGGGTCGCGCAGTACGTGAACCTGTGGGGCACCATGGTCGGGTACACCATCACGGCGACCATAAGCATGGCgtgagtaacc----agatc---ctattttcctcccaagccagga----cgctctagctcgttctctgacatgtc-catgcgccgcgcgcgccag----------------

upper sequence: LOC_Os01g65660.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM5G830545_T03 (Zea mays), 5'ss of exon 3
TTTCAGGTCCTAGAGAGGTGTTCATGTGCGGAATCGCGCAGTACGTCAACCTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGTgtgagtaaccgaacagatcactcc------aacttccctccgaac-tg-aacttttcgccatcggt---caggctactaaatttcgtctgtttttctttttctttccgttgtgttgcgaag-----------------
      |||| || ||||||||||||||||| |||||||||||||| |||||||||||||||||||| || ||||| ||||| || ||||||||||||| || ||||||| || |    |||        ||  ||||| | | | || ||       | | ||||   ||||    |  | ||  | | |   | |||||  | |||   ||||  |                    
------GTCCCAGGGAGGTGTTCATGTGCGGGATCGCGCAGTACGTGAACCTGTGGGGCACCATGGTTGGGTACACCATCACGGCGACCATAAGCATGGCgtaagtaaccaaaaaccctactttcctccgaatctccctgcaagcatgcaatacgatacgaccggtgcccaggacgttctaatttttgtttcccttttttttctgccgacctgttctgttcatgtgcgcgccgcgcag

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|88436502|gb|CI691223.1|CI691223
EST:     CTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGT                         CGCGATCAGGAGGTCGGATTGCATCCATCGGAACGGCGCCGGCGCCGCCGC
genomic: CTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGTgtgagtaacc ... tgttgcgaagCGCGATCAGGAGGTCGGATTGCATCCATCGGAACGGCGCCGGCGCCGCCGC
EST: gi|88451924|gb|CI694702.1|CI694702
EST:     CTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGT                         CGCGATCAGGAGGTCGGATTGCATCCATCGGAACGGCGCCGGCGCCGCCGC
genomic: CTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGTgtgagtaacc ... tgttgcgaagCGCGATCAGGAGGTCGGATTGCATCCATCGGAACGGCGCCGGCGCCGCCGC
EST: gi|88582065|gb|CI699295.1|CI699295
EST:     CTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGT                         CGCGATCAGGAGGTCGGATTGCATCCATCGGAACGGCGCCGGCGCCGCCGC
genomic: CTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGTgtgagtaacc ... tgttgcgaagCGCGATCAGGAGGTCGGATTGCATCCATCGGAACGGCGCCGGCGCCGCCGC
EST: gi|88382775|gb|CI682667.1|CI682667
EST:     CTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGT                         CGCGATCAGGAGGTCGGATTGCATCCATCGGAACGGCGCCGGCGCCGCCGC
genomic: CTGTGGGGCACCATGGTCGGCTACACAATCACCGCAACCATAAGCATGGTgtgagtaacc ... tgttgcgaagCGCGATCAGGAGGTCGGATTGCATCCATCGGAACGGCGCCGGCGCCGCCGC