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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACATCGGCCATGCTCCAATACGGTCTAGAAACATGGAATCTTGGTGTCATCTGCCTCATTGGGAACTGCTTCCTGATGGGCGCTTATCTGGTCATACAGgtgatgcaaactttggaacatcttatccttggtgaagattaatatctatatgttgataaaatgtctttatttttgttggaaaaagaatgtctattgacagggttgctttcttatgtgcag

Basic information

species Oryza sativa
transcript LOC_Os06g49500.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g49500.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G134930_T03 (Zea mays), 5'ss of exon 3
GACATCGGCCATGCTCCAATACGGTCTAGAAACATGGAATCTTGGTGTCATCTGCCTCATTGGGAACTGCTTCCTGATGGGCGCTTATCTGGTCATACAGgtgatgcaaactttggaacat---cttatccttggtgaagattaatatctatatgttgataaaatgtctttatttttgttggaaaaa-gaatgtctattgacagggttgctttcttatgtgcag----------------------------------------------------------
| |  ||||||||||||   ||||  | ||  ||||| |||| || ||| |||||||||| || ||||||||||||||||||||||| || ||||| ||||||| ||| |||| |  ||     |||  |     ||  | |  |||| ||| | |||| |     | | | ||  || ||||     | |||  || |       | |  || | || |  |                                                           
GGCCGCGGCCATGCTCCGGAACGGCGTGGAGGCATGGCATCTCGGCGTCGTCTGCCTCATCGGAAACTGCTTCCTGATGGGCGCTTACCTCGTCATCCAGgtgacgcagacttggtgacgcagacttggcagcactggggttggatatatatttattgaaatttcctttctgttactgatggattggtggatgcttactactgtaatcgtattttaatatctacgatgttcacgcctgatgcaacaaaatcgccgtccttttcctgacgcgacaacctgcag
















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|218487115|gb|FG960498.1|FG960498
EST:     TGGTCATACAG                         GCT-CAGTGCTGATAAAATATCCCGCGAGCTTATCCTTAACAGCTTACTCT
genomic: TGGTCATACAGgtgatgcaaa ... ttatgtgcagGCTCCAGTGCTGATAAAATATCCCGCGAGCTTATCCTTAACAGCTTACTCT
EST: gi|33682871|gb|CF311110.1|CF311110
EST:     TCTGCCTCATTGGGAACTGCTTCCTGATGGGCGCTTATCTGGTCATACAG                         GCTCCAGTGCTGATAAAATATCCCGCGAGCTTATCCTTAACAGCTTACTCT
genomic: TCTGCCTCATTGGGAACTGCTTCCTGATGGGCGCTTATCTGGTCATACAGgtgatgcaaa ... ttatgtgcagGCTCCAGTGCTGATAAAATATCCCGCGAGCTTATCCTTAACAGCTTACTCT