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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGCTAAAGAGTCCTCGAAGGAGAGCAGTGTGGTGGAGCAGGTGGAATCTATGGCCGATCAGAAGGTTGTCATTGCTGAGgtttataggatctggacctgcctcattgtgctgcattggtttttgataggaaggattagtgcttgctaaacgggattgatctgcttgactttgtag

Basic information

species Oryza sativa
transcript LOC_Os03g17930.2
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|33809156|gb|CF330462.1|CF330462
EST:     TATGGCCGATCAGAAGGTTGTCATTGCTGAG                         GGGAGTGGTGAGCAGAAGCGCAAGGTCGTGAAAAAGAGCAAGGTAGAGAAG
genomic: TATGGCCGATCAGAAGGTTGTCATTGCTGAGgtttatagga ... gactttgtagGGGAGTGGTGAGCAGAAGCGCAAGGTCGTGAAAAAGAGCAAGGTAGAGAAG
EST: gi|29639433|gb|CB644442.1|CB644442
EST:     TGGTGGAGCAGGTGGAATCTATGGCCGATCAGAAGG--G-----G---AG                         -----TGGTGAGCAGAAGCGCAAGGTCGTGAAAAAGAGCAAGGTAGAGAAG
genomic: TGGTGGAGCAGGTGGAATCTATGGCCGATCAGAAGGTTGTCATTGCTGAGgtttatagga ... gactttgtagGGGAGTGGTGAGCAGAAGCGCAAGGTCGTGAAAAAGAGCAAGGTAGAGAAG
EST: gi|40490411|gb|BX899913.1|BX899913
EST:     TATGGCCGGTCAGAAGGTTG-CATTGCTGAG                         GGGAGTGGTGAGCAGAAGCGCAAGGTCGTGAAAAAGAGCAAGGTAGAGAAG
genomic: TATGGCCGATCAGAAGGTTGTCATTGCTGAGgtttatagga ... gactttgtagGGGAGTGGTGAGCAGAAGCGCAAGGTCGTGAAAAAGAGCAAGGTAGAGAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGCTAAAGAGTCCTCGAAGGAGAGCAGTGTGGTGGAGCAGGTGGAATCTATGGCCGATCAGAAGGTTGTCATTGCTGAGgtttataggatctggacctgcctcattgtgctgcattggtttttgataggaaggattagtgcttgctaaacgggattgatctgcttgactttgtag

- - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - GGTGGA