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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCAAGGTCTAAAGAGATCTCGAATTTTCTTGAAATGCTAAATACTTCGGGGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAGgtatgcattgaaccaaagtaaaacatttaaagaatatgttctgcgtgtatgtgattagagcacaaagaaatggatctttactttgcaccaaaaaatgtga...

Basic information

species Oryza sativa
transcript LOC_Os11g36070.1
intron # 3
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|29672693|gb|CB668968.1|CB668968
EST:     GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAG                         GTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
genomic: GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAGgtatgcattg ... tgttctgtagGTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
EST: gi|88721762|gb|CI745061.1|CI745061
EST:     GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAG                         GTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
genomic: GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAGgtatgcattg ... tgttctgtagGTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
EST: gi|58609633|gb|CK037666.1|CK037666
EST:     GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAG                         GTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
genomic: GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAGgtatgcattg ... tgttctgtagGTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
EST: gi|29626153|gb|CB631164.1|CB631164
EST:     GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAG                         GTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
genomic: GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAGgtatgcattg ... tgttctgtagGTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
EST: gi|88731451|gb|CI755064.1|CI755064
EST:     GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAG                         GTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
genomic: GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAGgtatgcattg ... tgttctgtagGTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
EST: gi|29665385|gb|CB661660.1|CB661660
EST:     GGAATGAACGATCTTCCAAGATTCATGAGGCATCACATAAAGAATGGAAG                         GTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
genomic: GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAGgtatgcattg ... tgttctgtagGTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
EST: gi|88352092|gb|CI626092.1|CI626092
EST:     GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAG                         GTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
genomic: GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAGgtatgcattg ... tgttctgtagGTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
EST: gi|29623258|gb|CB628269.1|CB628269
EST:     GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAG                         GTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
genomic: GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAGgtatgcattg ... tgttctgtagGTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
EST: gi|29626975|gb|CB631986.1|CB631986
EST:     GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAG                         GTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
genomic: GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAGgtatgcattg ... tgttctgtagGTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
EST: gi|88730714|gb|CI754327.1|CI754327
EST:     GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAG                         GTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
genomic: GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAGgtatgcattg ... tgttctgtagGTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
EST: gi|29623293|gb|CB628304.1|CB628304
EST:     GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAG                         GTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG
genomic: GGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAGgtatgcattg ... tgttctgtagGTGAAGCAAGACACGGACCAATTACGAGTTATGTATCGCGAGGGACCAGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGCAAGGTCTAAAGAGATCTCGAATTTTCTTGAAATGCTAAATACTTCGGGGAATGAACGATCTTCGAAGATTCATGAGGCATCACATAAAGAATGGAAGgtatgcattgaaccaaagtaaaacatttaaagaatatgttctgcgtgtatgtgattagagcacaaagaaatggatctttactttgcaccaaaaaatgtga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG