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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tactgcgatctcctttatgttattcaaaatgaaatgatatcttccatttttgcaaaaccttatgatcaaactatttgtaacatttgtttactttttgcagAAAAATGGAACACTGGTGAAAAAATTGGTGAAAGG

Basic information

species Oryza sativa
transcript LOC_Os01g67220.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g67220.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G044092_T01 (Zea mays), 3'ss of exon 9
--tactgcgatctcctttat-gttattcaaaatgaaatgatatcttccatttttgcaaaaccttatgatcaaactatttgtaacatttgtttactttttgcagAAAAATGGAACACTGGTGAAAAAATTGGTGAAAGG
   |  ||| |     ||||  || ||     ||  || ||   |     |  ||  ||   |  |  |   | || |  | || ||| ||  ||||| |||||||||||||| | ||||||||||||||||||||||
caaatagcgttgcatattattattgttgttgttgttattattattaatgatgatgataatagtagtagtagtaataatc-tgacgtttatt--cttttggcagAAAAATGGAATAGTGGTGAAAAAATTGGTGAAAGG
















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|88591557|gb|CI709596.1|CI709596
EST:     GGATCCAGAAGATATTTATTTTTACCGAGTACAACAAGTGGAGAGAATAG                         AAAAATGGAACACTGGTGAAAAAATTGGTGAAAGG
genomic: GGATCCAGAAGATATTTATTTTTACCGAGTACAACAAGTGGAGAGAATAGgtacaattct ... ctttttgcagAAAAATGGAACACTGGTGAAAAAATTGGTGAAAGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttttgcaaaaccttatgatcaaactatttgtaacatttgtttactttttgcagAAAAATGGAACACTGGTGAAAAAATTGGTGAAAGG
                             ttgtaac  putative branch site (score: 2)
                                     tttgtttacttttt  CT-rich tract
                                    atttgtttacttttt  TA-rich tract