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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAgtgaatccaacccccgcttcttatggatccccctcactctactctacacgtttccatcgtttttcccctactcctaaatcagttgcacgttgacgcgttt...

Basic information

species Oryza sativa
transcript LOC_Os02g57660.2
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|88730771|gb|CI754384.1|CI754384
EST:     TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
genomic: TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88695413|gb|CI737916.1|CI737916
EST:     ATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
genomic: ATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88718434|gb|CI741944.1|CI741944
EST:     TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
genomic: TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88724145|gb|CI749155.1|CI749155
EST:     TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
genomic: TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88313018|gb|CI592302.1|CI592302
EST:     TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
genomic: TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88743243|gb|CI766751.1|CI766751
EST:     ATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGNGACGGNGAGGCT
genomic: ATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88336854|gb|CI626934.1|CI626934
EST:     AGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
genomic: AGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88723285|gb|CI746795.1|CI746795
EST:     TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
genomic: TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88695521|gb|CI737559.1|CI737559
EST:     ATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
genomic: ATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88357069|gb|CI615956.1|CI615956
EST:     GCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
genomic: GCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88361384|gb|CI626488.1|CI626488
EST:     TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
genomic: TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88367742|gb|CI570481.1|CI570481
EST:     TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
genomic: TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88385952|gb|CI568620.1|CI568620
EST:     GCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGGGAGGCT
genomic: GCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88298956|gb|CI567959.1|CI567959
EST:     TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
genomic: TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88760304|gb|CI769860.1|CI769860
EST:     CACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
genomic: CACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88317267|gb|CI626910.1|CI626910
EST:     GAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCTTCCGC
genomic: GAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCTTCCGC
EST: gi|88723551|gb|CI747061.1|CI747061
EST:     ATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
genomic: ATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88412816|gb|CI576080.1|CI576080
EST:     TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
genomic: TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88403248|gb|CI570989.1|CI570989
EST:     GCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
genomic: GCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88352184|gb|CI613835.1|CI613835
EST:     TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCAAACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGAGGGCGAGGCT
genomic: TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88718054|gb|CI741564.1|CI741564
EST:     TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
genomic: TAGTAGTAGTAAAAGATCTAGCGCCGCATACACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
EST: gi|88741890|gb|CI764395.1|CI764395
EST:     CACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT
genomic: CACCACCACACGAGACGAAGCAGCAGCGGAGAGGGGCCTCTCGTCGGCGACGCACGCCGGCCGGAGGAGGACGACGGCGACGGCGACGGCGAGGCT

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGAgtgaatccaacccccgcttcttatggatccccctcactctactctacacgtttccatcgtttttcccctactcctaaatcagttgcacgttgacgcgttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccccgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccccctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccctac