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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGAGGGAAGCTTTCATCAGCTCCCTTGGTTCCAGAAGTTTTTCTGTCACAGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAGgtatgttcaatggcacactgtacaggaagtataagttctcttttctcatgatcttttacgttattctttggttaacacgtggtttatgcacccttttgttctttttcag

Basic information

species Oryza sativa
transcript LOC_Os01g03070.1
intron # 7
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|86427691|gb|CI072788.1|CI072788
EST:     AGTACCTTCCTGCTTNGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAG                         GCTTCCCAGATATTTCAGTCTGTGAAAATTGATATGCTCTCAAGAATGATC
genomic: AGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAGgtatgttcaa ... tctttttcagGCTTCCCAGATATTTCAGTCTGTGAAAATTGATATGCTCTCAAGAATGATC
EST: gi|88964806|gb|CI084804.1|CI084804
EST:     AGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAG                         GCTTCCCAGATATTTCAGTCTGTGAAAATTGATATGCTCTCAAGAATGATC
genomic: AGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAGgtatgttcaa ... tctttttcagGCTTCCCAGATATTTCAGTCTGTGAAAATTGATATGCTCTCAAGAATGATC
EST: gi|89192877|gb|CI050175.1|CI050175
EST:     AGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAG                         GCTTCCCAGATATTTCAGTCTGTGAAAATTGATATGCTCTCAAGAATGATC
genomic: AGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAGgtatgttcaa ... tctttttcagGCTTCCCAGATATTTCAGTCTGTGAAAATTGATATGCTCTCAAGAATGATC
EST: gi|29673992|gb|CB670267.1|CB670267
EST:     AGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAC                         GCTTCCCAGATATTTCAGTCTGTGAAAATTGATATGCTCTCAAGAATGATC
genomic: AGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAGgtatgttcaa ... tctttttcagGCTTCCCAGATATTTCAGTCTGTGAAAATTGATATGCTCTCAAGAATGATC
EST: gi|86429925|gb|CI082348.1|CI082348
EST:     AGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAG                         GCTTCCCAGATATTTCAGTCTGTGAAAATTGATATGCTCTCAAGAATGATC
genomic: AGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAGgtatgttcaa ... tctttttcagGCTTCCCAGATATTTCAGTCTGTGAAAATTGATATGCTCTCAAGAATGATC
EST: gi|89185749|gb|CI047618.1|CI047618
EST:     AGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAG                         GCTTCCCAGATATTTCAGTCTGTGAAAATTGATATGCTCTCAAGAATGATC
genomic: AGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAGgtatgttcaa ... tctttttcagGCTTCCCAGATATTTCAGTCTGTGAAAATTGATATGCTCTCAAGAATGATC
EST: gi|88263846|gb|CI367620.1|CI367620
EST:     AGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAG                         GCTTCCCAGATATTTCAGTCTGTGAAAATTGATATGCTCTCAAGAATGATC
genomic: AGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAGgtatgttcaa ... tctttttcagGCTTCCCAGATATTTCAGTCTGTGAAAATTGATATGCTCTCAAGAATGATC
EST: gi|58695557|gb|CK084244.1|CK084244
EST:     AGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAG                         GCTTCCCAGATATTTCAGTCTGTGAAAATTGATATGCTCTCAAGAATGATC
genomic: AGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAGgtatgttcaa ... tctttttcagGCTTCCCAGATATTTCAGTCTGTGAAAATTGATATGCTCTCAAGAATGATC
EST: gi|86432397|gb|CI086008.1|CI086008
EST:     AGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCTACAG                         GCTTCCCAGATATTTCAGTCTGTGAAAATTGATATGCTCTCAAGAATGATC
genomic: AGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAGgtatgttcaa ... tctttttcagGCTTCCCAGATATTTCAGTCTGTGAAAATTGATATGCTCTCAAGAATGATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGAGGGAAGCTTTCATCAGCTCCCTTGGTTCCAGAAGTTTTTCTGTCACAGTACCTTCCTGCTTTGGAGAAGTTAACAACTTTAAGGGTGTTGCAACAGgtatgttcaatggcacactgtacaggaagtataagttctcttttctcatgatcttttacgttattctttggttaacacgtggtttatgcacccttttgttctttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT