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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGGTGGAGTCGGAGCGCGACCCGGCGAAGGACCCCCTCGTGCTCTGGCTCAACGGCGGCCCCGGCTGCTCCAGCTTCGACGGCTTCGTCTACGAGCACGgtgcgtatatcccatccacacacacacacctcctgccccctcgccgtcgccggagctagcctccggccgcggcgcgttgcggcggcgagtcgtctcgtcg...

Basic information

species Oryza sativa
transcript LOC_Os12g15470.2
intron # 2
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|117240321|gb|CT842747.1|CT842747
EST:     CAACGGCGGCCCCGGCTGCTCCAGCTTCGACGGCTTCGTCTACGAGCACG                         GACCATTCAATTTCGAGTCAGGAGGGTCAGCCAAGAGCCTACCGAAGCTTC
genomic: CAACGGCGGCCCCGGCTGCTCCAGCTTCGACGGCTTCGTCTACGAGCACGgtgcgtatat ... tgctttccagGACCATTCAATTTCGAGTCAGGAGGGTCAGCCAAGAGCCTACCGAAGCTTC
EST: gi|29659836|gb|CB656111.1|CB656111
EST:     CAACGGCGGCCCCTGCTGCTCCAGCTTCGACGGCTTCGTCTACGAGCACG                         GACCATTCAATTTCGAGTCAGGAGGGTCAGCCAAGAGCCTACCGAAGCTTC
genomic: CAACGGCGGCCCCGGCTGCTCCAGCTTCGACGGCTTCGTCTACGAGCACGgtgcgtatat ... tgctttccagGACCATTCAATTTCGAGTCAGGAGGGTCAGCCAAGAGCCTACCGAAGCTTC
EST: gi|29668081|gb|CB664356.1|CB664356
EST:     CAACGGCGGCCCCCGCTGCTCCAGCTTCGACGGCTTCGTCTACGAGCACG                         GACCATTCAATTTCGAGTCAGGAGGGTCAGCCAAGAGCCTACCGAAGCTTC
genomic: CAACGGCGGCCCCGGCTGCTCCAGCTTCGACGGCTTCGTCTACGAGCACGgtgcgtatat ... tgctttccagGACCATTCAATTTCGAGTCAGGAGGGTCAGCCAAGAGCCTACCGAAGCTTC
EST: gi|58695212|gb|CK083899.1|CK083899
EST:     CAACGGCGGCCCCGGCTGCTCCAGCTTCGACGGCTTCGTCTACGAGCACG                         GACCATTCAATTTCGAGTCAGGAGGGTCAGCCAAGAGCCTACCGAAGCTTC
genomic: CAACGGCGGCCCCGGCTGCTCCAGCTTCGACGGCTTCGTCTACGAGCACGgtgcgtatat ... tgctttccagGACCATTCAATTTCGAGTCAGGAGGGTCAGCCAAGAGCCTACCGAAGCTTC
EST: gi|33801783|gb|CF326764.1|CF326764
EST:     CAACGGCGGCCCCGGCTGCTCCAGCTTCGACGGCTTCGTCTACGAGCACG                         GACCATTCAATTTCGAGTCAGGAGGGTCAGCCAAGAGCCTACCGAAGCTTC
genomic: CAACGGCGGCCCCGGCTGCTCCAGCTTCGACGGCTTCGTCTACGAGCACGgtgcgtatat ... tgctttccagGACCATTCAATTTCGAGTCAGGAGGGTCAGCCAAGAGCCTACCGAAGCTTC
EST: gi|58660840|gb|CK049520.1|CK049520
EST:     CAACGGCGGCCCCGGCTGCTCCAGCTTCGACGGCTTCGTCTACGAGCACG                         GACCATTCAATTTCGAGTCAGGAGGGTCAGCCAAGAGCCTACCGAAGCTTC
genomic: CAACGGCGGCCCCGGCTGCTCCAGCTTCGACGGCTTCGTCTACGAGCACGgtgcgtatat ... tgctttccagGACCATTCAATTTCGAGTCAGGAGGGTCAGCCAAGAGCCTACCGAAGCTTC
EST: gi|4715276|gb|AU056393.1|AU056393
EST:     GGCCCCGGCTGCTCCAGCTTCGACGGCTTCGTCTACGAGCACG                         GACCATTCAATTTCGAGTCAGGAGGGTCAGCCAAGAGCCTACCGAAGCTTC
genomic: GGCCCCGGCTGCTCCAGCTTCGACGGCTTCGTCTACGAGCACGgtgcgtatat ... tgctttccagGACCATTCAATTTCGAGTCAGGAGGGTCAGCCAAGAGCCTACCGAAGCTTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGGTGGAGTCGGAGCGCGACCCGGCGAAGGACCCCCTCGTGCTCTGGCTCAACGGCGGCCCCGGCTGCTCCAGCTTCGACGGCTTCGTCTACGAGCACGgtgcgtatatcccatccacacacacacacctcctgccccctcgccgtcgccggagctagcctccggccgcggcgcgttgcggcggcgagtcgtctcgtcg

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