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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcttccaatgcttgcatgatgttttgcactttaatgatgatagctagtctaatcaatgttctggtttctaacaggttttttttttcatatcttactgtagGATACATCTACTGAAAGTTTGGAGCTTGACTTGGAGCATTACGTTATTCCAACACCATCTGCAGCAACATCTGAATATGCAGCAAACCTTGCCGCAAACC

Basic information

species Oryza sativa
transcript LOC_Os05g07130.2
intron # 3
splice site 3'
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|29616051|gb|CB621063.1|CB621063
EST:     GGGGAATCCCTGATGTCAGTATAAATGTCGCACCTGCGCATGGGACCGAG                         GATACATCTACTGAAAGTTTGGAGCTTGACTTGGAGCATTACGTTATTCCA
genomic: GGGGAATCCCTGATGTCAGTATAAATGTCGCACCTGCGCATGGGACCGAGgtgataacag ... cttactgtagGATACATCTACTGAAAGTTTGGAGCTTGACTTGGAGCATTACGTTATTCCA
EST: gi|33799660|gb|CF325693.1|CF325693
EST:     GGGGAATCCCTGATGTCAGTATAAATGTCGCACCTGCGCATGGGACCGAG                         GATACATCTACTGAAAGTTTGGAGCTTGACTTGGAGCATTACGTTATTCCA
genomic: GGGGAATCCCTGATGTCAGTATAAATGTCGCACCTGCGCATGGGACCGAGgtgataacag ... cttactgtagGATACATCTACTGAAAGTTTGGAGCTTGACTTGGAGCATTACGTTATTCCA
EST: gi|29615976|gb|CB620988.1|CB620988
EST:     GGGGAATCCCTGATGTCAGTATAAATGTCGCACCTGCGCATGGGACCGAG                         GATACATCTACTGAAAGTTTGGAGCTTGACTTGGAGCATTACGTTATTCCA
genomic: GGGGAATCCCTGATGTCAGTATAAATGTCGCACCTGCGCATGGGACCGAGgtgataacag ... cttactgtagGATACATCTACTGAAAGTTTGGAGCTTGACTTGGAGCATTACGTTATTCCA
EST: gi|29616011|gb|CB621023.1|CB621023
EST:     GGGGAATCCCTGATGTCAGTATAAATGTCGCACCTGCGCATGGGACCGAG                         GATACATCTACTGAAAGTTTGGAGCTTGACTTGGAGCATTACGTTATTCCA
genomic: GGGGAATCCCTGATGTCAGTATAAATGTCGCACCTGCGCATGGGACCGAGgtgataacag ... cttactgtagGATACATCTACTGAAAGTTTGGAGCTTGACTTGGAGCATTACGTTATTCCA
EST: gi|29615974|gb|CB620986.1|CB620986
EST:     GGGGAATCCCTGATGTCAGTATAAATGTCGCACCTGCGCATGGGACCGAG                         GATACATCTACTGAAAGTTTGGAGCTTGACTTGGAGCATTACGTTATTCCA
genomic: GGGGAATCCCTGATGTCAGTATAAATGTCGCACCTGCGCATGGGACCGAGgtgataacag ... cttactgtagGATACATCTACTGAAAGTTTGGAGCTTGACTTGGAGCATTACGTTATTCCA
EST: gi|33799018|gb|CF325368.1|CF325368
EST:     GGGGAATCCCTGATGTCAGTATAAATGTCGCACCTGCGCATGGGACCGAG                         GATACATCTACTGAAAGTTTGGAGCTTGACTTGGAGCATTACGTTATTCCA
genomic: GGGGAATCCCTGATGTCAGTATAAATGTCGCACCTGCGCATGGGACCGAGgtgataacag ... cttactgtagGATACATCTACTGAAAGTTTGGAGCTTGACTTGGAGCATTACGTTATTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtctaatcaatgttctggtttctaacaggttttttttttcatatcttactgtagGATACATCTACTGAAAGTTTGGAGCTTGACTTGGAGCATTACGTTATTCCAACACCATCTGCAGCAACATCTGAATATGCAGCAAACCTTGCCGCAAACC
                              ttttttttttcatatc  CT-rich tract
                              ttttttttttcatatc  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcttccaatgcttgcatgatgttttgcactttaatgatgatagctagtctaatcaatgttctggtttctaacaggttttttttttcatatcttactgtagGATACATCTACTGAAAGTTTGGAGCTTGACTTGGAGCATTACGTTATTCCAACACCATCTGCAGCAACATCTGAATATGCAGCAAACCTTGCCGCAAACC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
gcttcca
- - - - - - tgcatga
- - - - - - - - - - -ttttgca
- - - - - - - - - - - - - - - - -atgatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttctg