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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctccccaaacatagtgccaagaaatccagaaaaatttaagccatgcagcttcttgggttggcatctaacatgctattattgacattgttgcagAAAGTGACAATCTGGAAGAAGATTCATGTCATCTACAACTTCTTTTTGATCCGCAAAATCATCGCGCACATCGTGACCTTTGCGTTCTACTGCTTGATTA

Basic information

species Oryza sativa
transcript LOC_Os02g09930.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g09930.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G105631_T05 (Zea mays), 3'ss of exon 2
------------------------------------------gtctccccaaacatagtgccaagaaatccagaaaaatttaagccatgcagcttcttgggttggcatctaacatgc----tattattgacattgttgcagAAAGTGACAATCTGGAAGAAGATTCATGTCATCTACAACTTCTTTTTGATCCGCAAAATCATCGCGCACATCGTGACCTTTGCGTTCTACTGCTTGATTA
                                            || | || |    ||   |    |||| |||   | || |||| |  |    |  ||  |  | |||||  |     |  || ||||  ||  |||||||||||| |||||||||||||| || |||||||||||||||||  |||| ||||| ||||||||||||||| | |||||  ||||||||||| | || |
gtctgtccctccaaacacgaacccgtcgaatcaaactctctaagctgcacagagcacgtctgactggatccggaag--tctaggccaggtggaacgt--ggccgctagctaactcgtcgcgtgctactgactgtgacgcagAAAGTGACGATCTGGAAGAAGATCCACGTCATCTACAACTTCTTCCTGATACGCAAGATCATCGCGCACATCATCACCTTCTCGTTCTACTGCGTCATCA
















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|87008680|gb|CI302835.1|CI302835
EST:     CAGGAAGATGCTGATGGAGATTGTGAGAAATAAG                         AAAGTGACAATCTGGAAGAAGATTCATGTCATCTACAACTTCTTTTTGATC
genomic: CAGGAAGATGCTGATGGAGATTGTGAGAAATAAGgtctccccaa ... attgttgcagAAAGTGACAATCTGGAAGAAGATTCATGTCATCTACAACTTCTTTTTGATC
EST: gi|44674207|gb|CR287641.1|CR287641
EST:     GGCCGGGAAACTTGTTCAGGAAGATG-TGATGGAGATTGTGAGAAATAAG                         AAAGTGACAATCTGGAAGAAGATTCATGTCATCTACAACTTCTTTTTGATC
genomic: GGCCGGCAAACCTGTTCAGGAAGATGCTGATGGAGATTGTGAGAAATAAGgtctccccaa ... attgttgcagAAAGTGACAATCTGGAAGAAGATTCATGTCATCTACAACTTCTTTTTGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agccatgcagcttcttgggttggcatctaacatgctattattgacattgttgcagAAAGTGACAATCTGGAAGAAGATTCATGTCATCTACAACTTCTTTTTGATCCGCAAAATCATCGCGCACATCGTGACCTTTGCGTTCTACTGCTTGATTA
                                      tattgac  putative branch site (score: 2)
                                   tattattga  TA-rich tract