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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcctcattcagtttcagagtgctgaataaagaaaattaaaaatctcccaacatttttgtaatactgctaatctgctatcgatggtgatcagATATATCATGTTAATCTGAGAGAAGCTGCATGGTTTAGTGCACTCCCCTGGGTCATGATGGCAGTTTTAGGCTATGTTGCTGGTGTTGTATCAGACAGGC

Basic information

species Oryza sativa
transcript LOC_Os01g63290.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g63290.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM5G856598_T02 (Zea mays), 3'ss of exon 4
gtaagtcctcattcagtttcagagtgctgaataaagaaaattaaaaatctcccaacatttttgtaatactgctaatctgctatcgatggtgatcagATATATCATGTTAATCTGAGAGAAGCTGCATGGTTTAGTGCACTCCCCTGGGTCATGATGGCAGTTTTAGGCTATGTTGCTGGTGTTGTATCAGACAGGC
||||| | ||| || | ||||   | ||  |      ||||||    | |||||  |||      |   || |    |||| ||| ||||||||||||||||||||| ||| |||||||||| || ||||| ||||||||||| ||||| ||||||||||||||||||||||| |||||||||||||| |||| ||
gtaagacttcactctgcttcaattttcttgagtgtataaattact--tttcccagtattc-----aacttgatg--ttgctttcg-tggtgatcagATATATCATGTCAATTTGAGAGAAGCAGCTTGGTTCAGTGCACTCCCTTGGGTGATGATGGCAGTTTTAGGCTATGTGGCTGGTGTTGTATCGGACATGC
















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|66920436|gb|CX107284.1|CX107284
EST:     GGTTATTTTGTCATTCTTTCATGGATGCCAGTGTATTTCAAAACA                         ATATATCATGTTAATCTGAGAGAAGCTGCATGGTTTAGTGCACTCCCCTGG
genomic: GGTTATTTTGTCATTCTTTCATGGATGCCAGTGTATTTCAAAACAgtaagtcctc ... tggtgatcagATATATCATGTTAATCTGAGAGAAGCTGCATGGTTTAGTGCACTCCCCTGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaaaatctcccaacatttttgtaatactgctaatctgctatcgatggtgatcagATATATCATGTTAATCTGAGAGAAGCTGCATGGTTTAGTGCACTCCCCTGGGTCATGATGGCAGTTTTAGGCTATGTTGCTGGTGTTGTATCAGACAGGC
                            tgctaat  putative branch site (score: 2)
            aacatttttgtaata  TA-rich tract