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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttcttctctgacatgtcacaataatttgttttgtagctttctcactttatgatgtaaactatgtcaatctgatttgtcatggacattttcgttatttagGTAGACTACGAGGAGGCTATCTTCTTGTGGAGTATTGATAAGAAGGATTTCTTTCTATGGGCAATCACATTCATTACAACATTAATTTTTGGTATTGAGA

Basic information

species Oryza sativa
transcript LOC_Os09g06499.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g06499.1 (Oryza sativa), 3'ss of exon 12
lower sequence: GRMZM2G068212_T01 (Zea mays), 3'ss of exon 11
tttcttctctgacatgtcacaataatttgttttgtagctttctcactttatgatgtaaactatgtca-atctgatttgtcatggacat---tttcgttatttagGTAGACTACGAGGAGGCTATCTTCTTGTGGAGTATTGATAAGAAGGATTTCTTTCTATGGGCAATCACATTCATTACAACATTAATTTTTGGTATTGAGA
  |  | |||    | || |      | || ||  | | || |    || |||| ||||| || | | || |||||| |||| || ||   ||||    || ||||||| || || ||||| ||||||||||||  |||||||||||| ||||||||| |||||||||||||||| || ||||||||| ||||||| |||||||
-ctagtttcttttgtatctcttctcgtagtatttaaaccttgt---gttgtgatataaacaattttacatttgatttctcatagaaatcagtttctaatttcagGTAGATTATGAAGAGGCCATCTTCTTGTGGGCTATTGATAAGAAAGATTTCTTTTTATGGGCAATCACATTTATCACAACATTAGTTTTTGGCATTGAGA
















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|29613614|gb|CB618627.1|CB618627
EST:     TGTGCCTTGGCTGCAATTGTTATTTCTGCAGTCACTAGCCTG                         GTAGACTACGAAGAGGCTATCTTCTTGTGGAGTATTGATAAGAAGGATTTC
genomic: TGTGCCTTGGCTGCAATTGTTATTTCTGCAGTCACTAGCCTGgtaaggacat ... cgttatttagGTAGACTACGAGGAGGCTATCTTCTTGTGGAGTATTGATAAGAAGGATTTC
EST: gi|29661763|gb|CB658038.1|CB658038
EST:     TGTGCCTTGGCTGCAATTGTTATTTCTGCAGTCACTAGCCTG                         GTAGACTACGAGGAGGCTATCTTCTTGTGGAGTATTGATAAGAAGGATTTC
genomic: TGTGCCTTGGCTGCAATTGTTATTTCTGCAGTCACTAGCCTGgtaaggacat ... cgttatttagGTAGACTACGAGGAGGCTATCTTCTTGTGGAGTATTGATAAGAAGGATTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttatgatgtaaactatgtcaatctgatttgtcatggacattttcgttatttagGTAGACTACGAGGAGGCTATCTTCTTGTGGAGTATTGATAAGAAGGATTTCTTTCTATGGGCAATCACATTCATTACAACATTAATTTTTGGTATTGAGA
                      atctgat  putative branch site (score: 4)
                                         ttttcgtt  putative PPT
                                        attttcgttattta  TA-rich tract