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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataaatgcaataatattcaatactggcaaaatgttctgtgaaaaattccagtcatttgctttataccaattgtccctgtgtgtaacctttttatttttagGACACCAACAAGGGATGCATCACCTGGCCAAGTGAACCAAGATTCATCACAGGAGTTTCAACCTAGAAGAATAAGTTTGCTTGCTCCGTTTTCCCTTGGC

Basic information

species Oryza sativa
transcript LOC_Os01g61860.2
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g61860.2 (Oryza sativa), 3'ss of exon 16
lower sequence: GRMZM2G096470_T01 (Zea mays), 3'ss of exon 16
ataaatgcaataatattcaatactggcaaaatgttctgtgaaaa--attccagtcatttgcttt----ataccaa-ttgtccctgtgtgtaacc-tttttatttttagGACACCAACAAGGGATGCATCACCTGGCCAAGTGAACCAAGATTCATCACAGGAGTTTCAACCTAGAAGAATAAGTTTGCTTGCTCCGTTTTCCCTTGGC
       |||  | || | ||  || | |    ||   | |     |||||| ||||||||| |    |  |||| |||    ||| |  || | |||||  |  |||||| |||||  | ||||||||||| ||||||| ||||||||||||||| |||||||| || |||||||||||||| |||||||| || |||||      |
-------caaatagatgcgat-ttgactagtcttttcattaggcgtattccactcatttgctgttccaacgccaacttgatattgtttccaaacatttttcctcatagGACCCCAACTCGAGATGCATCACCAGGCCAAGGGAACCAAGATTCATCGCAGGAGTTCCAGCCTAGAAGAATAAGCTTGCTTGCCCCATTTTCTTCCCTC
















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|163927799|gb|EG710555.1|EG710555
EST:     CAATCAAGCCAGCAAAAGGCACAATTGCCATCCCCTTCACCTTCTCCAAG                         GACACCAACAAGGGATGCATCACCTGGCCAAGTGAACCAAGATTCATCACA
genomic: CAATCAAGCCAGCAAAAGGCACAATTGCCATCCCCTTCACCTTCTCCAAGgtattatggt ... ttatttttagGACACCAACAAGGGATGCATCACCTGGCCAAGTGAACCAAGATTCATCACA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccagtcatttgctttataccaattgtccctgtgtgtaacctttttatttttagGACACCAACAAGGGATGCATCACCTGGCCAAGTGAACCAAGATTCATCACAGGAGTTTCAACCTAGAAGAATAAGTTTGCTTGCTCCGTTTTCCCTTGGC
                                  gtgtaac  putative branch site (score: 3)
                                        cctttttattttt  CT-rich tract
                                     taacctttttattttt  TA-rich tract