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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTAGCAATGATGAGGGTAGTTTGGCAAAAAGCGTGATCACAACGAAGGAACCTGATACTGTTGAATGCGAAGgtgacatgcaaagtagttgaagaatagttctcttttgtgaatcgattatttattgttcttcattagcag

Basic information

species Oryza sativa
transcript LOC_Os01g67920.1
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|29673835|gb|CB670110.1|CB670110
EST:     GGCAAAAAGCGTGATCACAACGAAGGAACCTGATACTGTTGAATGCGAAG                         ATGCTGATCAACATTGTCAAGGGGCTTCTGTTGCACGCGAAGAGAAAGTTA
genomic: GGCAAAAAGCGTGATCACAACGAAGGAACCTGATACTGTTGAATGCGAAGgtgacatgca ... tcattagcagATGCTGATCAACATTGTCAAGGGGCTTCTGTTGCACGCGAAGAGAAAGTTA
EST: gi|58664547|gb|CK053233.1|CK053233
EST:     GTTGAATGCGAAG                         ATGCTGATC-ACATTGTCAA-GGGCTTCTGTTGCACGCGAAGAGAAAGTTA
genomic: GTTGAATGCGAAGgtgacatgca ... tcattagcagATGCTGATCAACATTGTCAAGGGGCTTCTGTTGCACGCGAAGAGAAAGTTA
EST: gi|33796933|gb|CF324330.1|CF324330
EST:     CAACGAAGGAACCTGATACTGTTGAATGCGAAG                         ATGCTGATCAACATTGTCAAGGGGCTTCTGTTGCACGCGAAGAGAAAGTTA
genomic: CAACGAAGGAACCTGATACTGTTGAATGCGAAGgtgacatgca ... tcattagcagATGCTGATCAACATTGTCAAGGGGCTTCTGTTGCACGCGAAGAGAAAGTTA
EST: gi|58664496|gb|CK053182.1|CK053182
EST:     GGCAAAAAGCGTGATCACAACGAAGGAACCTGATACTGTTGAATGCGAAG                         ATGCTGATCAACATTGTCAAGGGGCTTCTGTTGCACGCGAAGAGAAAGTTA
genomic: GGCAAAAAGCGTGATCACAACGAAGGAACCTGATACTGTTGAATGCGAAGgtgacatgca ... tcattagcagATGCTGATCAACATTGTCAAGGGGCTTCTGTTGCACGCGAAGAGAAAGTTA
EST: gi|58688799|gb|CK077486.1|CK077486
EST:     GGCAAAAAGCGTGATCACAACGAAGGAACCTGATACTGTTGAATGCGAAG                         ATGCTGATCAACATTGTCAAGGGGCTTCTGTTGCACGCGAAGAGAAAGTTA
genomic: GGCAAAAAGCGTGATCACAACGAAGGAACCTGATACTGTTGAATGCGAAGgtgacatgca ... tcattagcagATGCTGATCAACATTGTCAAGGGGCTTCTGTTGCACGCGAAGAGAAAGTTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGTAGCAATGATGAGGGTAGTTTGGCAAAAAGCGTGATCACAACGAAGGAACCTGATACTGTTGAATGCGAAGgtgacatgcaaagtagttgaagaatagttctcttttgtgaatcgattatttattgttcttcattagcag

- - - - - - - - - - - - - - - - - - - - - - - AAGGAA