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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactttgagtttctcttctttcgttagcctatcactttagcaattgcatgatgtacttcttgtgcataatatcatctaaactttattaattagctaacttggtgaataatgtctttacagGAGAACAGCGAGTGGGTTGAATGGCAGACAACTGCCCTGGTCAAACGCAATGAGGTTGAGAACGTTTATCATTGGGCCTGTGG

Basic information

species Oryza sativa
transcript LOC_Os05g51490.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g51490.1 (Oryza sativa), 3'ss of exon 14
lower sequence: GRMZM5G812498_T01 (Zea mays), 3'ss of exon 4
gtactttgagtttctcttctttcgttagcctatcacttt-agcaattgcatgatgtacttcttgtgcataatatcatctaaactttattaattagctaacttggtgaataatgtctttacagGAGAACAGCGAGTGGGTTGAATGGCAGACAACTGCCCTGGTCAAACGCAATGAGGTTGAGAACGTTTATCATTGGGCCTGTGG
||| ||  | ||||| ||   || || ||| |  | ||  | |  |||  | |||||||  || |||||       | ||||||||                           | |||| |||||||||| ||||||| || |||||| | |  || |||| |||||||||||||||| ||||| ||||| |||||||| |||||
gtatttccaatttctgtttcatctttggccaacaatttggaactgttgtgtcatgtactcttt-tgcatt------tataaacttt---------------------------tgtttatagGAGAACAGTGAGTGGGCTGTATGGCAAATAGATGTCCTGATCAAACGCAATGAGGTGGAGAATGTTTACCATTGGGCATGTGG
















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|58612771|gb|CK040483.1|CK040483
EST:     GCTTATTCAAGCGGGGAAATAGCAACAGCATAATCCAGTCTCATTTGCAG                         GAGAACAGCGAGTGGGTTGAATGGCAGACAACTGCCCTGGTCAAACGCAAT
genomic: GCTTATTCAA-CTGGGAAATAGCAACAGCATAATCCAGTCTCATTTGCAGgtactttgag ... gtctttacagGAGAACAGCGAGTGGGTTGAATGGCAGACAACTGCCCTGGTCAAACGCAAT
EST: gi|58653975|gb|CK042655.1|CK042655
EST:     AGCTTATTCAACTGGGAAATAGCAACAGCATAATCCAGTCTCATTTGCAG                         GAGAACAGCGAGTGGGTTGAATGGCAGACAACTGCCCTGGTCAAACGCAAT
genomic: AGCTTATTCAACTGGGAAATAGCAACAGCATAATCCAGTCTCATTTGCAGgtactttgag ... gtctttacagGAGAACAGCGAGTGGGTTGAATGGCAGACAACTGCCCTGGTCAAACGCAAT
EST: gi|58689163|gb|CK077850.1|CK077850
EST:     AGCTTATTCAACTGGGAAATAGCAACAGCATAATCCAGTCTCATTTGCAG                         GAGAACAGCGAGTGGGTTGAATGGCAGACAACTGCCCTGGTCAAACGCAAT
genomic: AGCTTATTCAACTGGGAAATAGCAACAGCATAATCCAGTCTCATTTGCAGgtactttgag ... gtctttacagGAGAACAGCGAGTGGGTTGAATGGCAGACAACTGCCCTGGTCAAACGCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataatatcatctaaactttattaattagctaacttggtgaataatgtctttacagGAGAACAGCGAGTGGGTTGAATGGCAGACAACTGCCCTGGTCAAACGCAATGAGGTTGAGAACGTTTATCATTGGGCCTGTGG
                          agctaac  putative branch site (score: 2)
                                            tgtcttt  putative PPT
     atcatctaaactttat  TA-rich tract