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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagaaattttgttataaacctactctacatctgtaggagaattgcgtacctcatggattgatcttgaaatctcctgtgcagATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACTGGGCTTCAGGCCCGTGTTAACGCACTGGGATCAACTGCCACTGTTATCACAT

Basic information

species Oryza sativa
transcript LOC_Os12g03470.5
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g03470.5 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G077299_T03 (Zea mays), 3'ss of exon 15
gcaagaaattttgttataaacctactctacatctgtaggagaattgcgtacctcatggattgatctt-gaaatctcctgtgcagATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACTGGGCTTCAGGCCCGTGTTAACGCACTGGGATCAACTGCCACTGTTATCACAT
||||| ||       | |||  | |||| |||       ||      |||    ||  ||||||||  |||| ||||||||||| | |||||||| ||||| ||| | |||| ||| || |||||  ||| |||||| |||||| || | ||||| ||||||||||| ||||||||| ||||||
gcaagcaaa------aaaaaagttctct-catgcaccctag---cctgtaatgtatctattgatctcagaaaactcctgtgcagGTCATAAACTTCGGGTCAGATGCTGTGACCCTGACAATCTCCACAAGTGGGCTCCAGGCCAGTATCAACGCTCTGGGATCAACCGCCACTGTTCTCACAT
















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|86886795|gb|CI334709.1|CI334709
EST:     TGAAAATAGCTTCTTAAGAGTAAAG                         ATTATAAACTTTGGGTCTCATCCAGTGAGCCTCACGATCTCTGCAAGTGGG
genomic: TGAAAATAGCTTCTTAAGAGTAAAGgcaagaaatt ... tcctgtgcagATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACTGGG
EST: gi|29672406|gb|CB668681.1|CB668681
EST:     CATCTGCAATTACTTGGCAGGATTCTGAAAATAGCTTCTTAAGAGTAAAG                         ATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACTGGG
genomic: CATCTGCAATTACTTGGCAGGATTCTGAAAATAGCTTCTTAAGAGTAAAGgcaagaaatt ... tcctgtgcagATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACTGGG
EST: gi|86864008|gb|CI332931.1|CI332931
EST:     CTTCTTAAGAGTAAAG                         ATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACTGGG
genomic: CTTCTTAAGAGTAAAGgcaagaaatt ... tcctgtgcagATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACTGGG
EST: gi|86871078|gb|CI328280.1|CI328280
EST:     CATCTGCAATTACTTGGCAGGATTGTGAAAATAGCTTCTTAAGAGTAAAG                         ATTATAAACGTTGGGTCTGATCCATTGAGCCTCACGATCTCTGCAACTGGG
genomic: CATCTGCAATTACTTGGCAGGATTCTGAAAATAGCTTCTTAAGAGTAAAGgcaagaaatt ... tcctgtgcagATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACTGGG
EST: gi|86908591|gb|CI318942.1|CI318942
EST:     TCTGAAAATAGCTTCTTAAGAGGTAAAG                         ATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAAGT-G
genomic: TCTGAAAATAGCTTCTTAAGA-GTAAAGgcaagaaatt ... tcctgtgcagATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACTGG
EST: gi|15852244|gb|BI805040.1|BI805040
EST:     ATTACTT-GCAGGATTCTGAAAATAGCTTCTTAAGAGTAAAG                         ATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACTGGG
genomic: ATTACTTGGCAGGATTCTGAAAATAGCTTCTTAAGAGTAAAGgcaagaaatt ... tcctgtgcagATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACTGGG
EST: gi|86895695|gb|CI315979.1|CI315979
EST:     TTCTGAAAATAGCTTCTTAAGAGGTAAAG                         ATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACT-G
genomic: TTCTGAAAATAGCTTCTTAAGA-GTAAAGgcaagaaatt ... tcctgtgcagATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACTGG
EST: gi|29672405|gb|CB668680.1|CB668680
EST:     CATCTGCAATTACTTGGCAGGATTCTGAAAATAGCTTCTTAAGAGTAAAG                         ATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACTGGG
genomic: CATCTGCAATTACTTGGCAGGATTCTGAAAATAGCTTCTTAAGAGTAAAGgcaagaaatt ... tcctgtgcagATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACTGGG
EST: gi|86882978|gb|CI314236.1|CI314236
EST:     CATCTGCAATTACGTGGCAGGATTCTGAAAATAGCTTCTTAAGAGTAAAG                         ATTATAAACTTTGGGTCTGATCCATTGAGCCTCACGATCTCTGCAACTGGG
genomic: CATCTGCAATTACTTGGCAGGATTCTGAAAATAGCTTCTTAAGAGTAAAGgcaagaaatt ... tcctgtgcagATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACTGGG
EST: gi|86839190|gb|CI331473.1|CI331473
EST:     CTTCTTAAGAGTAAAG                         ATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACTGGG
genomic: CTTCTTAAGAGTAAAGgcaagaaatt ... tcctgtgcagATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatctgtaggagaattgcgtacctcatggattgatcttgaaatctcctgtgcagATTATAAACTTTGGGTCTGATCCAGTGAGCCTCACGATCTCTGCAACTGGGCTTCAGGCCCGTGTTAACGCACTGGGATCAACTGCCACTGTTATCACAT
                             gattgat  putative branch site (score: 4)
                                           tctcctgt  putative PPT
                                     ttgaaat  TA-rich tract