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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGATCAAATTATTGATCTTGTAAAGAAGTATGGACCAACAAAATGGTCTGTCATAGCTAAGGCATTACCTGGCCGTATAGGGAAGCAATGTCGAGAGAGgtaatatttttatatcatggctgtattgttaccaggattcagctcactgttattaataaaacttttaaatttccagttatttttttcacatatgcattta...

Basic information

species Oryza sativa
transcript LOC_Os01g62410.1
intron # 6
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|33675025|gb|CF303264.1|CF303264
EST:     GTCATAGCTAAGGCATTACCTGGCCGTATAGGGAAGCAATGTCGAGAGAG                         GTGGCACAATCATCTAAATCCAGAAATAAGGAAAGATGCTTGGACTACTGA
genomic: GTCATAGCTAAGGCATTACCTGGCCGTATAGGGAAGCAATGTCGAGAGAGgtaatatttt ... acaatcttagGTGGCACAATCATCTAAATCCAGAAATAAGGAAAGATGCTTGGACTACTGA
EST: gi|66922024|gb|CX108872.1|CX108872
EST:     GTCATAGCTAAGGCATTACCTGGCCGTATAGGGAAGCAATGTCGAGAGAG                         GTGGCACAATCATCTAAATCCAGAAATAAGGAAAGATGCTTGGACTACTGA
genomic: GTCATAGCTAAGGCATTACCTGGCCGTATAGGGAAGCAATGTCGAGAGAGgtaatatttt ... acaatcttagGTGGCACAATCATCTAAATCCAGAAATAAGGAAAGATGCTTGGACTACTGA
EST: gi|33679187|gb|CF307426.1|CF307426
EST:     GTCATAGCTAAGGCATTACCTGGCCGTATAGGGAAGCAATGTCGAGAGAG                         GTGGCACAATCATCTAAATCCAGAAATAAGGAAAGATGCTTGGACTACTGA
genomic: GTCATAGCTAAGGCATTACCTGGCCGTATAGGGAAGCAATGTCGAGAGAGgtaatatttt ... acaatcttagGTGGCACAATCATCTAAATCCAGAAATAAGGAAAGATGCTTGGACTACTGA
EST: gi|25799828|gb|CA755789.1|CA755789
EST:     GTCATAGCTAAGGCATTACCTGGCCGTATAGGGAAGCAATGTCGAGAGAG                         GTGGCACAATCATCTAAATCCAGAAATAAGGAAAGATGCTTGGACTACTGA
genomic: GTCATAGCTAAGGCATTACCTGGCCGTATAGGGAAGCAATGTCGAGAGAGgtaatatttt ... acaatcttagGTGGCACAATCATCTAAATCCAGAAATAAGGAAAGATGCTTGGACTACTGA
EST: gi|58655298|gb|CK043978.1|CK043978
EST:     GTCATAGCTAAGGCATTACCTGGCCGTATAGGGAAGCAATGTCGAGAGAG                         GTGGCACAATCATCTAAATCCAGAAATAAGGAAAGATGCTTGGACTACTGA
genomic: GTCATAGCTAAGGCATTACCTGGCCGTATAGGGAAGCAATGTCGAGAGAGgtaatatttt ... acaatcttagGTGGCACAATCATCTAAATCCAGAAATAAGGAAAGATGCTTGGACTACTGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGATCAAATTATTGATCTTGTAAAGAAGTATGGACCAACAAAATGGTCTGTCATAGCTAAGGCATTACCTGGCCGTATAGGGAAGCAATGTCGAGAGAGgtaatatttttatatcatggctgtattgttaccaggattcagctcactgttattaataaaacttttaaatttccagttatttttttcacatatgcattta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaaa