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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttggtgcttctgcgaacacccaagagatgcactgaaacatggcatcaaagataagaaacctcattatagattcacaccacttcatttggttacctgtagGTGATGGCAAGTGATGGATTGTGGGACGTGATGAGCAACGAGGATGTCCTGTCCATCATCAAGGACACAGTAAAAGAGCCTGGAATGTGCTCCAAGCGGC

Basic information

species Oryza sativa
transcript LOC_Os01g36080.4
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g36080.4 (Oryza sativa), 3'ss of exon 10
lower sequence: Vv08s0040g00760.t01 (Vitis vinifera), 3'ss of exon 11
tttggtgcttctgcgaacacccaagagatgcactgaaacatggcatcaaagataagaaacctcatt---atagattcacaccacttcatttggttacctgtagGTGATGGCAAGTGATGGATTGTGGGACGTGATGAGCAACGAGGATGTCCTGTCCATCATCAAGGACACAGTAAAAGAGCCTGGAATGTGCTCCAAGCGGC
  ||| ||   ||      |        |  |  || | |||      |  | |  | |  ||  |   | | |   | |  | ||    || |    |  |||| |||||||| |||||  | ||||| ||  ||||||| |  || ||  ||  ||| |||| |||||| || |||||||||||||||||||||||| | |
--tgg-gcagttggatttcctaccttcttttaaggacagatgattgtgagaacatcacatttcccttggaaaaacagagagtaattatactgttgtttttcagGTAATGGCAAGCGATGGGCTCTGGGATGTTGTGAGCAATGCAGAGGTTGTGAGCATAATCAGGGACACTGTTAAAGAGCCTGGAATGTGCTCCAAGAGAC
















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|88506325|gb|CI433831.1|CI433831
EST:     ACAACCTGAGGTTATAGAAACCATTTTATCACCTGATGATGAGTTCCTG                         GTGATGGCAAGTGATGGATTGTGGGACGTGATGAGCAACGAGGATGTCCTG
genomic: ACAACCTGAGGTTATAGAAACCATTTTATCACCTGATGATGAGTTCCTGgtatgtccat ... ttacctgtagGTGATGGCAAGTGATGGATTGTGGGACGTGATGAGCAACGAGGATGTCCTG
EST: gi|29625169|gb|CB630180.1|CB630180
EST:     CACAACCTGAGGTTATAGAAACCATTTTATCACCTGATGATGAGTTCCTG                         GTGATGGCAAGTGATGGATTGTGGGACGTGATGAGCAACGAGGATGTCCTG
genomic: CACAACCTGAGGTTATAGAAACCATTTTATCACCTGATGATGAGTTCCTGgtatgtccat ... ttacctgtagGTGATGGCAAGTGATGGATTGTGGGACGTGATGAGCAACGAGGATGTCCTG
EST: gi|29676790|gb|CB673065.1|CB673065
EST:     CACAACCTGAGGTTATAGAAACCATTTTATCACCTGATGATGAGTTCCTG                         GTGATGGCAAGTGATGGATTGTGGGACGTGATGAGCAACGAGGATGTCCTG
genomic: CACAACCTGAGGTTATAGAAACCATTTTATCACCTGATGATGAGTTCCTGgtatgtccat ... ttacctgtagGTGATGGCAAGTGATGGATTGTGGGACGTGATGAGCAACGAGGATGTCCTG
EST: gi|29663423|gb|CB659698.1|CB659698
EST:     CACAACCTGAGGTTATAGAAACCATTTTATCACCTGATGATGAGTTCCTG                         GTGATGGCAAGTGATGGATTGTGGGACGTGATGAGCAACGAGGATGTCCTG
genomic: CACAACCTGAGGTTATAGAAACCATTTTATCACCTGATGATGAGTTCCTGgtatgtccat ... ttacctgtagGTGATGGCAAGTGATGGATTGTGGGACGTGATGAGCAACGAGGATGTCCTG
EST: gi|86500133|gb|CI142766.1|CI142766
EST:     CACAACCTGAGGTTATAGAAACCATTTTATCACCTGATGATGAGTTCCTG                         GTGATGGCAAGTGATGGATTGTGGGACGTGATGAGCAACGAGGATGTCCTG
genomic: CACAACCTGAGGTTATAGAAACCATTTTATCACCTGATGATGAGTTCCTGgtatgtccat ... ttacctgtagGTGATGGCAAGTGATGGATTGTGGGACGTGATGAGCAACGAGGATGTCCTG
EST: gi|88219801|gb|CI219361.1|CI219361
EST:     CACAACCTGAGGTTATAGAAACCATTTTATCACCTGATGATGAGTTCCTG                         GTGATGGCAAGTGATGGATTGTGGGACGTGATGAGCAACGAGGATGTCCTG
genomic: CACAACCTGAGGTTATAGAAACCATTTTATCACCTGATGATGAGTTCCTGgtatgtccat ... ttacctgtagGTGATGGCAAGTGATGGATTGTGGGACGTGATGAGCAACGAGGATGTCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaaagataagaaacctcattatagattcacaccacttcatttggttacctgtagGTGATGGCAAGTGATGGATTGTGGGACGTGATGAGCAACGAGGATGTCCTGTCCATCATCAAGGACACAGTAAAAGAGCCTGGAATGTGCTCCAAGCGGC
                  attatagatt  TA-rich tract