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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaaaaatgatctttgatctattcacagaatcccactgttgccattttttcctggtctctcaaatttataggttacttactgcctatccaatttttgcagGTGCTGATGTAGCAGGTGGAAGGGGTTACTATTTAAAGGATGAAGGTGTCCTACTGAACTTGGCATTGATAAATTTTGGACTCGCTTTTCTGAGAAAGCG

Basic information

species Oryza sativa
transcript LOC_Os01g37837.3
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g37837.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G172101_T01 (Zea mays), 3'ss of exon 4
---ttaaaaatgatctttgatctattcacagaatcccactgttgccattttttcctggtctctcaaatttataggttacttactgcctatccaatttttgcagGTGCTGATGTAGCAGGTGGAAGGGGTTACTATTTAAAGGATGAAGGTGTCCTACTGAACTTGGCATTGATAAATTTTGGACTCGCTTTTCTGAGAAAGCG
   ||        | |||| | | ||     ||   || |  ||  |    ||       || |    | | |   |  || ||   ||  || ||||||||||||||||||| || ||||| ||||||| |||||||||||||||||||||||| || ||| ||||||||||||||||||| || || ||||||||||| ||
tgcttgtgctctttgtttgcttttttgctgtaagaacatttgtggaacaggttgtcaagttcgcct-ctcacaacctttttcctattta--cactttttgcagGTGCTGATGTGGCTGGTGGTAGGGGTTTCTATTTAAAGGATGAAGGTGTCCTCCTTAACCTGGCATTGATAAATTTTGGGCTAGCCTTTCTGAGAAAACG
















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|3107670|gb|D43410.1|D43410
EST:     GCTTGACATAGTAGCTTTGGAGAAAG                         GTGCTGATGTAGCAGGTGGAAGGGGTTACTATTTAAAGGATGAAGGTGTCC
genomic: GCTTGACATAGTAGCTTTGGAGAAAGgtatatggta ... atttttgcagGTGCTGATGTAGCAGGTGGAAGGGGTTACTATTTAAAGGATGAAGGTGTCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttcctggtctctcaaatttataggttacttactgcctatccaatttttgcagGTGCTGATGTAGCAGGTGGAAGGGGTTACTATTTAAAGGATGAAGGTGTCCTACTGAACTTGGCATTGATAAATTTTGGACTCGCTTTTCTGAGAAAGCG
                            tacttac  putative branch site (score: 1)
                                              tttttgc  putative PPT
                aaatttataggtta  TA-rich tract