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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGAGCTCGGTGATCCATGGCCGTGGCTGTGGGGTGGCTGTGAGGGTGCCCCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAGgtcgccacactctaccgccccacccatgctccctccgcgcgcgatctaagctaggcctaatctagggttcctgattgcttttccattttcgcccggacgg...

Basic information

species Oryza sativa
transcript LOC_Os03g01890.2
intron # 1
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|58669860|gb|CK058546.1|CK058546
EST:     CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAG                         GGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
genomic: CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAGgtcgccacac ... tttcccccagGGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
EST: gi|88380878|gb|CI634903.1|CI634903
EST:     CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAG                         GGATCTACGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCACCG
genomic: CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAGgtcgccacac ... tttcccccagGGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
EST: gi|58674069|gb|CK062755.1|CK062755
EST:     CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAG                         GGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAATGAGATAAGAGCAGCG
genomic: CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAGgtcgccacac ... tttcccccagGGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
EST: gi|88717226|gb|CI740736.1|CI740736
EST:     CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAG                         GGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
genomic: CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAGgtcgccacac ... tttcccccagGGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
EST: gi|88339360|gb|CI635338.1|CI635338
EST:     CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAG                         GGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
genomic: CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAGgtcgccacac ... tttcccccagGGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
EST: gi|88359544|gb|CI621075.1|CI621075
EST:     CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAG                         GGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
genomic: CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAGgtcgccacac ... tttcccccagGGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
EST: gi|29678473|gb|CB674748.1|CB674748
EST:     CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAG                         GGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
genomic: CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAGgtcgccacac ... tttcccccagGGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
EST: gi|29678474|gb|CB674749.1|CB674749
EST:     GCGCCTGCCGGCGAGGGGGCTCGGACTGAAG                         GGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
genomic: GCGCCTGCCGGCGAGGGGGCTCGGACTGAAGgtcgccacac ... tttcccccagGGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
EST: gi|88354922|gb|CI615803.1|CI615803
EST:     CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAG                         GGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
genomic: CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAGgtcgccacac ... tttcccccagGGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
EST: gi|88315287|gb|CI611951.1|CI611951
EST:     CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAG                         GGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
genomic: CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAGgtcgccacac ... tttcccccagGGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
EST: gi|88400821|gb|CI616826.1|CI616826
EST:     CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAG                         GGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG
genomic: CCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAGgtcgccacac ... tttcccccagGGATCTAGGCGAGCTGAAAATTGAAGTGCAGGCAAGGAGATAAGAGCAGCG

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCGAGCTCGGTGATCCATGGCCGTGGCTGTGGGGTGGCTGTGAGGGTGCCCCCGGCGGCGCTCCCCTCCGCGCCTGCCGGCGAGGGGGCTCGGACTGAAGgtcgccacactctaccgccccacccatgctccctccgcgcgcgatctaagctaggcctaatctagggttcctgattgcttttccattttcgcccggacgg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG