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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagggttggtagggttgtatccagtaatttgtactccatttatcatgcataattgaatttctcttcttgtgcttgcttgacttgatatttataaatttagGCTGCCAAAGGTGTCATTGCCTGTGCTTCACAAGATGTCAAAGATTTATACAACCTTTTGGAACACGATTTTCTTCCTCTGGATCTCGTATCCAAAGCAC

Basic information

species Oryza sativa
transcript LOC_Os01g03070.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g03070.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G070487_T01 (Zea mays), 3'ss of exon 4
-tagggttggtagggttgtatccagtaatttgtactccat-ttatcatgcata--attgaatttctcttcttgtgcttgcttgacttgatatttataaatttagGCTGCCAAAGGTGTCATTGCCTGTGCTTCACAAGATGTCAAAGATTTATACAACCTTTTGGAACACGATTTTCTTCCTCTGGATCTCGTATCCAAAGCAC
 ||   |   |    |     |||  ||| |  | |  || ||||    | |    |   |  |  ||     |   |   |   || ||   |      ||||||  ||||||| ||| || | |||||||| ||||| ||   |||||| ||||||||||||||||| || ||||| |||||||| || | ||| ||||  |
ttataatctctttactctggcccatcaatattaaatgaatgttatagctcttgctgtcatagatagctatcaatatctatctatttttatggcttg----ttagGCCTCCAAAGGAGTCCTTTCATGTGCTTCCCAAGAAGTGCGAGATTTGTACAACCTTTTGGAACATGAGTTTCTACCTCTGGACCTTGCATCAAAAGTGC

upper sequence: LOC_Os01g03070.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G093050_T01 (Zea mays), 3'ss of exon 6
--tagggttggtagggttgtatcca-gtaatttgtactccatttatcatgcataattgaatttctcttcttgtgcttgcttgacttgatatttataaatt-tagGCTGCCAAAGGTGTCATTGCCTGTGCTTCACAAGATGTCAAAGATTTATACAACCTTTTGGAACACGATTTTCTTCCTCTGGATCTCGTATCCAAAGCAC
  |    ||  |  ||    ||| |  ||   ||     ||||| || |||    |   || ||     | |   |    |   |  || | |||   || |||||  ||||||| ||| || | |||||||| ||||| ||   |||||| ||||||||||||||||| || ||||| ||||||||||| | ||| ||||  |
tatctcttttctctggccccatcaatatagaatgagtatcatttctcttgc----tgtcatatcatagatagctgtaatatctatctatttgtatggcttgtagGCCTCCAAAGGAGTCCTTTCATGTGCTTCCCAAGAAGTGCGAGATTTGTACAACCTTTTGGAACATGAGTTTCTACCTCTGGATCTTGCATCAAAAGTGC
















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|29673992|gb|CB670267.1|CB670267
EST:     CCATCAAGAGCATCTCTTTTTTCTGAGCTG                         GCTGCCAAAGGTGTCATTGCCTGTGCTTCACAAGATGTCAAAGATTTATAC
genomic: CCATCAAGAGCATCTCTTTTTTCTGAGCTGgtatgtgctg ... ataaatttagGCTGCCAAAGGTGTCATTGCCTGTGCTTCACAAGATGTCAAAGATTTATAC
EST: gi|33677589|gb|CF305828.1|CF305828
EST:     CCATCAAGAGCATCTCTTTTTTCTGAGCTG                         GCTGCCAAAGGTGTCATTGCCTGTGCTTCACAAGATGTCAAAGATTTATAC
genomic: CCATCAAGAGCATCTCTTTTTTCTGAGCTGgtatgtgctg ... ataaatttagGCTGCCAAAGGTGTCATTGCCTGTGCTTCACAAGATGTCAAAGATTTATAC
EST: gi|33678827|gb|CF307066.1|CF307066
EST:     CCATCAAGAGCATCTCTTTTTTCTGAGCTG                         GCTGCCAAAGGTGTCATTGCCTGTGCTTCACAAGATGTCAAAGATTTATAC
genomic: CCATCAAGAGCATCTCTTTTTTCTGAGCTGgtatgtgctg ... ataaatttagGCTGCCAAAGGTGTCATTGCCTGTGCTTCACAAGATGTCAAAGATTTATAC
EST: gi|58695557|gb|CK084244.1|CK084244
EST:     TTTTTCTGAGCTG                         GCTGCCAAAGGTGTCATTGCCTGTGCTTCACAAGATGTCAAAGATTTATAC
genomic: TTTTTCTGAGCTGgtatgtgctg ... ataaatttagGCTGCCAAAGGTGTCATTGCCTGTGCTTCACAAGATGTCAAAGATTTATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcataattgaatttctcttcttgtgcttgcttgacttgatatttataaatttagGCTGCCAAAGGTGTCATTGCCTGTGCTTCACAAGATGTCAAAGATTTATACAACCTTTTGGAACACGATTTTCTTCCTCTGGATCTCGTATCCAAAGCAC
                               ttgacttgatatttat  TA-rich tract