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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGAAATTACACTGTTCTGCTTCAATTTGCAGAGTTAGGTTATCCAGACTCACCAACTTGGAAAAGCTTAGGAAGGAGAGTTTTTGACATATATATCCAGgtacaaattgagtgcattgtatggtaatttctattctccttataaaagggactagtggtggtggtggttctgctaccaccccacaaccaattcctaactt...

Basic information

species Oryza sativa
transcript LOC_Os08g10320.3
intron # 16
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|29630668|gb|CB635677.1|CB635677
EST:     CACCAACTTGGAAAAGCTTAGGAAGGAGAGTTTTTGACATATATATCCAG                         GGTGACCTAAAAGAAAAGGACTTCGATATAAGGAAGATGGCTGGTGGAAAA
genomic: CACCAACTTGGAAAAGCTTAGGAAGGAGAGTTTTTGACATATATATCCAGgtacaaattg ... atttttatagGGTGACCTAAAAGAAAAGGACTTCGATATAAGGAAGATGGCTGGTGGAAAA
EST: gi|58592203|gb|CF990511.1|CF990511
EST:     CACCAACTTGGAAAAGCTTAGGAAGGAGAGTTTTTGACATATATATCCAG                         GGTGACCTAAAAGAAAAGGACTTCGATATAAGGAAGATGGCTGGTGGAAAA
genomic: CACCAACTTGGAAAAGCTTAGGAAGGAGAGTTTTTGACATATATATCCAGgtacaaattg ... atttttatagGGTGACCTAAAAGAAAAGGACTTCGATATAAGGAAGATGGCTGGTGGAAAA
EST: gi|58690195|gb|CK078882.1|CK078882
EST:     CACCAACTTGGAAAAGCTTAGGAAGGAGAGTTTTTGACATATATATCCAG                         NGTGACCTAAAAGAAAAGGACTTCGATATAAGGAAGATGGCTGGTGGAAAA
genomic: CACCAACTTGGAAAAGCTTAGGAAGGAGAGTTTTTGACATATATATCCAGgtacaaattg ... atttttatagGGTGACCTAAAAGAAAAGGACTTCGATATAAGGAAGATGGCTGGTGGAAAA
EST: gi|58693619|gb|CK082306.1|CK082306
EST:     CACCAACTTGGAAAAGCTTAGGAAGGAGAGTTTTTGACATATATATCCAN                         GGTGACCTAAAAGAAAAGGACTTCGATATAAGGAAGATGGCTGGTGGAAAA
genomic: CACCAACTTGGAAAAGCTTAGGAAGGAGAGTTTTTGACATATATATCCAGgtacaaattg ... atttttatagGGTGACCTAAAAGAAAAGGACTTCGATATAAGGAAGATGGCTGGTGGAAAA
EST: gi|29630198|gb|CB635207.1|CB635207
EST:     CACCAACTTGGAAAAGCTTAGGAAGGAGAGTTTTTGACATATATATCCAG                         GGTGACCTAAAAGAAAAGGACTTCGATATAAGGAAGATGGCTGGTGGAAAA
genomic: CACCAACTTGGAAAAGCTTAGGAAGGAGAGTTTTTGACATATATATCCAGgtacaaattg ... atttttatagGGTGACCTAAAAGAAAAGGACTTCGATATAAGGAAGATGGCTGGTGGAAAA
EST: gi|29623048|gb|CB628059.1|CB628059
EST:     CACCAACTTGGAAAAGCTTAGGAAGGAGAGTTTTTGACATATATATCCAG                         GGTGACCTAAAAGAAAAGGACTTCGATATAAGGAAGATGGCTGGTGGAAAA
genomic: CACCAACTTGGAAAAGCTTAGGAAGGAGAGTTTTTGACATATATATCCAGgtacaaattg ... atttttatagGGTGACCTAAAAGAAAAGGACTTCGATATAAGGAAGATGGCTGGTGGAAAA
EST: gi|29615848|gb|CB620860.1|CB620860
EST:     CACCAACTTGGAAAAGCTTAGGAAGGAGAGTTTTTGACATATATATCCAG                         GGTGACCTAAAAGAAAAGGACTTTGATATAAGGAAGATGGCTGGTGGAAAA
genomic: CACCAACTTGGAAAAGCTTAGGAAGGAGAGTTTTTGACATATATATCCAGgtacaaattg ... atttttatagGGTGACCTAAAAGAAAAGGACTTCGATATAAGGAAGATGGCTGGTGGAAAA
EST: gi|29630383|gb|CB635392.1|CB635392
EST:     CACCAACTTGGAAAAGCTTAGGAAGGAGAGTTTTTGACATATATATCCAG                         GGTGACCTAAAAGAAAAGGACTTCGATATAAGGAAGATGGCTGGGGGAAAA
genomic: CACCAACTTGGAAAAGCTTAGGAAGGAGAGTTTTTGACATATATATCCAGgtacaaattg ... atttttatagGGTGACCTAAAAGAAAAGGACTTCGATATAAGGAAGATGGCTGGTGGAAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGAAATTACACTGTTCTGCTTCAATTTGCAGAGTTAGGTTATCCAGACTCACCAACTTGGAAAAGCTTAGGAAGGAGAGTTTTTGACATATATATCCAGgtacaaattgagtgcattgtatggtaatttctattctccttataaaagggactagtggtggtggtggttctgctaccaccccacaaccaattcctaactt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggtggtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccacccc