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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agattgagtaggaaaaatgttaccattttttatagcaattttgttttgttattgctagactatcgtgttatgtctattgaagctatatttctttgtacagGTAGCTAACTATGTGGTCGAGAAACTTGATAGACCACTGGATGGCAATGCTGACAGCACATTTGGAATGGGATTGACTTCTGGCCAATCACAATTTTCAG

Basic information

species Oryza sativa
transcript LOC_Os12g06810.1
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g06810.3 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G167999_T02 (Zea mays), 3'ss of exon 15
agattgagtaggaaaaatgttaccattttt-tatagcaattttgttttgttattgctagactatcgtgtt-----atgtctattgaagctatatttctttgtacagGTAGCTAACTATGTGGTCGAGAAACT------TGATAGACCACTGGATGGCAATGCTGACAGCACATTTGGAATGGGATTGACTTCTGGCCAATCACAATTTTCAG
      || | | |  |  |||  ||  || ||  | | || |||| |  ||     |   |||    |      | || ||  |    |  ||||| ||||||||||||||||||||||||| ||||||||      ||| | |||| |||||||     ||||     | ||||  |||||||||| |||||  ||||||||  | |   
------agcatggagtaatttatgatcattataaggaacttctgttattgtacaagcaccttatttattccctgaaagtttacagctatttcatttcattgtacagGTAGCTAACTATGTGGTTGAGAAACTCGTTCTTGACAAACCATTGGATGGAGGCTCTGA---TGCGTTTGTTATGGGATTGAGTTCTGCTCAATCACAGCTCT---
















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|87027399|gb|CI270074.1|CI270074
EST:     TATTGCGGATTCACAAA                         GTAGCTAACTATGTGGTCGAGAAACTTGATAGACCACTGGATGGCAATGCT
genomic: TATTGCGGATTCACAAAgtaagattgc ... ctttgtacagGTAGCTAACTATGTGGTCGAGAAACTTGATAGACCACTGGATGGCAATGCT
EST: gi|27554489|gb|CA998389.1|CA998389
EST:     ACATAACACAAGGGAAACTTAGTGCTCCACGGATATTGCGGATTCACAAA                         GTAGCTAACTATGTGGTCGAGAAACTTGATAGACCACTGGATGGCAATGCT
genomic: ACATAACACAAGGGAAACTTAGTGCTCCACGGATATTGCGGATTCACAAAgtaagattgc ... ctttgtacagGTAGCTAACTATGTGGTCGAGAAACTTGATAGACCACTGGATGGCAATGCT
EST: gi|29666969|gb|CB663244.1|CB663244
EST:     ACATAACACAAGGGAAACTTAGTGCTCCACGGATATTGCGGATTCACAAA                         GTAGCTAACTATGTGGTCGAGAAACTTGATAGACCACTGGATGGCAATGCT
genomic: ACATAACACAAGGGAAACTTAGTGCTCCACGGATATTGCGGATTCACAAAgtaagattgc ... ctttgtacagGTAGCTAACTATGTGGTCGAGAAACTTGATAGACCACTGGATGGCAATGCT
EST: gi|29683579|gb|CB679854.1|CB679854
EST:     ACATAACACAAGGGAAACTTAGTGCTCCACGGATATTGCGGATTCACAAA                         GTAGCTAACTATGTGGTCGAGAAACTTGATAGACCACTGGATGGCAATGCT
genomic: ACATAACACAAGGGAAACTTAGTGCTCCACGGATATTGCGGATTCACAAAgtaagattgc ... ctttgtacagGTAGCTAACTATGTGGTCGAGAAACTTGATAGACCACTGGATGGCAATGCT
EST: gi|58600096|gb|CK010624.1|CK010624
EST:     ACATAACACAAGGGAAACTTAGTGCTCCACGGATATTGCGGATTCACAAA                         GTAGCTAACTATGTGGTCGAGAAACTTGATAGACCACTGGATGGCAATGCT
genomic: ACATAACACAAGGGAAACTTAGTGCTCCACGGATATTGCGGATTCACAAAgtaagattgc ... ctttgtacagGTAGCTAACTATGTGGTCGAGAAACTTGATAGACCACTGGATGGCAATGCT
EST: gi|86477800|gb|CI120433.1|CI120433
EST:     CCACGGATATTGCGGATTCACAAA                         GTAGCTAACTATGTGTTCGAGAAACTTGATAGACCACTGGATGGCAATGCT
genomic: CCACGGATATTGCGGATTCACAAAgtaagattgc ... ctttgtacagGTAGCTAACTATGTGGTCGAGAAACTTGATAGACCACTGGATGGCAATGCT
EST: gi|29670914|gb|CB667189.1|CB667189
EST:     ACATAACACAAGGGAAACTTAGTGCTCCACGGATATTGCGGATTCACAAA                         GTAGCTAACTATGTGGTCGAGAAACTTGATAGACCACTGGATGGCAATGCT
genomic: ACATAACACAAGGGAAACTTAGTGCTCCACGGATATTGCGGATTCACAAAgtaagattgc ... ctttgtacagGTAGCTAACTATGTGGTCGAGAAACTTGATAGACCACTGGATGGCAATGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttattgctagactatcgtgttatgtctattgaagctatatttctttgtacagGTAGCTAACTATGTGGTCGAGAAACTTGATAGACCACTGGATGGCAATGCTGACAGCACATTTGGAATGGGATTGACTTCTGGCCAATCACAATTTTCAG
                                        tatttcttt  CT-rich tract
                                      tatatttctttgta  TA-rich tract