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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGGTAGTGTCAGGGACAACATTGCTTTTGGTAAACCAGAAGCTGATGAAGACGAGATCGTGGAAGCTGCTAAAGCTGCAAATGCACATGAATTCATATCgtaagttcttcaagttttcctttccaaatatacagtgcagcaatgttcctgttaaatgaattccagttatgaatgtactaaagtatattctttttcag

Basic information

species Oryza sativa
transcript LOC_Os01g52550.1
intron # 8
splice site 5'
intron type U2

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|86437793|gb|CI119713.1|CI119713
EST:     GACGAGATCGTGGAAGCTGCTAAAGCTGCAAATGCACATGAATTCATATC                         ATCTCTAAAGGACGGATATCATACTGACTGTGGTGAGCATGGGTTACAACT
genomic: GACGAGATCGTGGAAGCTGCTAAAGCTGCAAATGCACATGAATTCATATCgtaagttctt ... tctttttcagATCTCTAAAGGACGGATATCATACTGACTGTGGTGAGCATGGATTACAACT
EST: gi|109711843|gb|CI029013.1|CI029013
EST:     GACGAGATCGTGGAAGCTGCTAAAGCTGCAAATGCACATGAATTCATATC                         ATCTCTAAAGGACGGATATCATACTGACTGTGGTGAGCATGGATTACAACT
genomic: GACGAGATCGTGGAAGCTGCTAAAGCTGCAAATGCACATGAATTCATATCgtaagttctt ... tctttttcagATCTCTAAAGGACGGATATCATACTGACTGTGGTGAGCATGGATTACAACT
EST: gi|86867309|gb|CI337807.1|CI337807
EST:     CATGAATTCATATC                         ATCTCTAAAGGACGGATATCATACTGACTGTGGTGAGCATGGATTACAACT
genomic: CATGAATTCATATCgtaagttctt ... tctttttcagATCTCTAAAGGACGGATATCATACTGACTGTGGTGAGCATGGATTACAACT
EST: gi|86893655|gb|CI314784.1|CI314784
EST:     GACGAGATCGTGGAAGCTGCTAAAGCTGCAAATGCACATGAATTCATATC                         ATCTCTAAAGGACGGAGATCATACTGACTCG-GGTGAGCATGGATTACAAC
genomic: GACGAGATCGTGGAAGCTGCTAAAGCTGCAAATGCACATGAATTCATATCgtaagttctt ... tctttttcagATCTCTAAAGGACGGATATCATACTGACT-GTGGTGAGCATGGATTACAAC
EST: gi|29681298|gb|CB677573.1|CB677573
EST:     GACGAGATCGTGGAAGCTGCTAAAGCTGCAAATGCACATGAATTCATATC                         ATCTCTAAAGGACGGATATCATACTGACTGTGGTGAGCATGGATTACAACT
genomic: GACGAGATCGTGGAAGCTGCTAAAGCTGCAAATGCACATGAATTCATATCgtaagttctt ... tctttttcagATCTCTAAAGGACGGATATCATACTGACTGTGGTGAGCATGGATTACAACT
EST: gi|86832522|gb|CI344772.1|CI344772
EST:     AGCTGCTAAAGCTGCAAATGCACATGAATTCATATC                         ATCTGTAAAGGACGGATATCATACTGACTGTGGTGAGCATGGATTACAACT
genomic: AGCTGCTAAAGCTGCAAATGCACATGAATTCATATCgtaagttctt ... tctttttcagATCTCTAAAGGACGGATATCATACTGACTGTGGTGAGCATGGATTACAACT
EST: gi|86254963|gb|CI017083.1|CI017083
EST:     ATGCACATGAATTCATATC                         ATCTGTAAAGGACGGATATCATACTGACTGTGGTGAGCATGGATTACAACT
genomic: ATGCACATGAATTCATATCgtaagttctt ... tctttttcagATCTCTAAAGGACGGATATCATACTGACTGTGGTGAGCATGGATTACAACT
EST: gi|27576317|gb|CA999011.1|CA999011
EST:     GACGAGATCGTGGAAGCTGCTAAAGCTGCAAATGCACATGAATTCATATC                         ATCTCTAAAGGACGGATATCATACTGACTGTGGTGAGCATGGATTACAACT
genomic: GACGAGATCGTGGAAGCTGCTAAAGCTGCAAATGCACATGAATTCATATCgtaagttctt ... tctttttcagATCTCTAAAGGACGGATATCATACTGACTGTGGTGAGCATGGATTACAACT
EST: gi|86882228|gb|CI325716.1|CI325716
EST:     GACGAGATCGTGGAAGCTGCTAAAGCTGCAAATGCACATGAATTCATATC                         ATCTCTAAAGGACGGATATCATACTGACTGTGGTGAGCATGGATTACAACT
genomic: GACGAGATCGTGGAAGCTGCTAAAGCTGCAAATGCACATGAATTCATATCgtaagttctt ... tctttttcagATCTCTAAAGGACGGATATCATACTGACTGTGGTGAGCATGGATTACAACT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGGTAGTGTCAGGGACAACATTGCTTTTGGTAAACCAGAAGCTGATGAAGACGAGATCGTGGAAGCTGCTAAAGCTGCAAATGCACATGAATTCATATCgtaagttcttcaagttttcctttccaaatatacagtgcagcaatgttcctgttaaatgaattccagttatgaatgtactaaagtatattctttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC