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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTACATGGTCGGAAATGGTGTTTGCGACACTGTTTTTGATGGTAATGCTCTTGTGCCATTTGCTCATGGAATGGCTCTAATTTCAGACGATATATACCAGgtaagtccactattcagattgaaagccccatttcagtaatatttcccctacacattatgagaaagaatcagagtacccttttttcatattctatggattt...

Basic information

species Oryza sativa
transcript LOC_Os12g15470.2
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|33793780|gb|CF322774.1|CF322774
EST:     TTGTGCCATTTGCTCATGGAATGGCTCTAATTTCAGACGATATATACCAG                         GAAGCTCAGACTGCATGCCACGGAAACTACTGGAATACTACCACTGATAAA
genomic: TTGTGCCATTTGCTCATGGAATGGCTCTAATTTCAGACGATATATACCAGgtaagtccac ... caaaattcagGAAGCTCAGACTGCATGCCACGGAAACTACTGGAATACTACCACTGATAAA
EST: gi|117240321|gb|CT842747.1|CT842747
EST:     TTGTGCCATTTGCTCATGGAATGGCTCTAATTTCAGACGATATATACCAG                         GAAGCTCAGACTGCATGCCACGGAAACTACTGGAATACTACCACTGATAAA
genomic: TTGTGCCATTTGCTCATGGAATGGCTCTAATTTCAGACGATATATACCAGgtaagtccac ... caaaattcagGAAGCTCAGACTGCATGCCACGGAAACTACTGGAATACTACCACTGATAAA
EST: gi|29659836|gb|CB656111.1|CB656111
EST:     TTGTGCCATTTGCTCATGGAATGGCTCTAATTTCAGACGATATATACCAG                         GAAGCTCAGACTGCATGCCACGGAAACTACTGGAATACTACCACTGATAAA
genomic: TTGTGCCATTTGCTCATGGAATGGCTCTAATTTCAGACGATATATACCAGgtaagtccac ... caaaattcagGAAGCTCAGACTGCATGCCACGGAAACTACTGGAATACTACCACTGATAAA
EST: gi|33684071|gb|CF312310.1|CF312310
EST:     TCAGACGATATATACCAG                         GAAGCTCAGACTGCATGCCACGGAAACTACTGGAATACTACCACTGATAAA
genomic: TCAGACGATATATACCAGgtaagtccac ... caaaattcagGAAGCTCAGACTGCATGCCACGGAAACTACTGGAATACTACCACTGATAAA
EST: gi|29668081|gb|CB664356.1|CB664356
EST:     TTGTGCCATTTGCTCATGGAATGGCTCTAATTTCAGACGATATATACCAG                         GAAGCTCAGACTGCATGCCACGGAAACTACTGGAATACTACCACTGATAAA
genomic: TTGTGCCATTTGCTCATGGAATGGCTCTAATTTCAGACGATATATACCAGgtaagtccac ... caaaattcagGAAGCTCAGACTGCATGCCACGGAAACTACTGGAATACTACCACTGATAAA
EST: gi|29661783|gb|CB658058.1|CB658058
EST:     TTGTGCCATTTGCTCATGGAATGGCTCTAATTTCAGACGATATATACCAG                         GAAGCTCAGACTGCATGCCACGGAAACTACTGGAATACTACCACTGATAAA
genomic: TTGTGCCATTTGCTCATGGAATGGCTCTAATTTCAGACGATATATACCAGgtaagtccac ... caaaattcagGAAGCTCAGACTGCATGCCACGGAAACTACTGGAATACTACCACTGATAAA
EST: gi|33801783|gb|CF326764.1|CF326764
EST:     TTGTGCCATTTGCTCATGGAATGGCTCTAATTTCAGACGATATATACCAG                         GAAGCTCAGACTGCATGCCACGGAAACTACTGGAATACTACCACTGATAAA
genomic: TTGTGCCATTTGCTCATGGAATGGCTCTAATTTCAGACGATATATACCAGgtaagtccac ... caaaattcagGAAGCTCAGACTGCATGCCACGGAAACTACTGGAATACTACCACTGATAAA
EST: gi|88399116|gb|CI603783.1|CI603783
EST:     TTGTGCCATTTGCTCATGGAATGGCTCTAATTTCAGACGATATATACCAG                         GAAGCTCAGACTGCATGCCACGGAAACTACTGGAATACTACCACTGATAAA
genomic: TTGTGCCATTTGCTCATGGAATGGCTCTAATTTCAGACGATATATACCAGgtaagtccac ... caaaattcagGAAGCTCAGACTGCATGCCACGGAAACTACTGGAATACTACCACTGATAAA
EST: gi|86905526|gb|CI285489.1|CI285489
EST:     TTGTGCCATTTGCTCATGGAATGGCTCTAATTTCAGACGATATATACCAG                         GAAGCTCAGACTGCATGCCACGGAAACTACTGGAATACTACCACTGATAAA
genomic: TTGTGCCATTTGCTCATGGAATGGCTCTAATTTCAGACGATATATACCAGgtaagtccac ... caaaattcagGAAGCTCAGACTGCATGCCACGGAAACTACTGGAATACTACCACTGATAAA
EST: gi|4715276|gb|AU056393.1|AU056393
EST:     TGTGCCATTTGCTCATGGGAATGGCTCTAATTTCAGACGATATATACCAG                         GGAAGCTCAGACTGCATGCCACGGGNAACTACTGGAATACTACCACTGGAT
genomic: TGTGCCATTTGCTCATGG-AATGGCTCTAATTTCAGACGATATATACCAGgtaagtccac ... caaaattcagG-AAGCTCAGACTGCATGCCACGGA-AACTACTGGAATACTACCACTG-AT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTACATGGTCGGAAATGGTGTTTGCGACACTGTTTTTGATGGTAATGCTCTTGTGCCATTTGCTCATGGAATGGCTCTAATTTCAGACGATATATACCAGgtaagtccactattcagattgaaagccccatttcagtaatatttcccctacacattatgagaaagaatcagagtacccttttttcatattctatggattt

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