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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCCCCAAGCGCCGTGAATTGGTAGGACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAAgtaggtgaatcctcacggctccggatctcctcttttgaggatttcccccgaattttgatcagatgttcgatgcttttcag

Basic information

species Oryza sativa
transcript LOC_Os03g17570.1
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|29665633|gb|CB661908.1|CB661908
EST:     ACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAA                         GACTCGGAAGCAATTGATTGTGAAGTATTCCTTTCAGTTCGGCTTGAAGTA
genomic: ACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAAgtaggtgaat ... tgcttttcagGACTCGGAAGCAATTGATTGTGAAGTATTCCTTTCAGTTCGGCTTGAAGTA
EST: gi|88330650|gb|CI635280.1|CI635280
EST:     ACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAA                         GACTCGGAAGCAATTGATTGTGAAGTATTCCTTTCAGTTCGGCTTGAAGTA
genomic: ACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAAgtaggtgaat ... tgcttttcagGACTCGGAAGCAATTGATTGTGAAGTATTCCTTTCAGTTCGGCTTGAAGTA
EST: gi|88573494|gb|CI665065.1|CI665065
EST:     ACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAA                         GACTCGGAAGCAATTGATTGTGAAGTATTCCTTTCAGTTCGGCTTGAAGTA
genomic: ACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAAgtaggtgaat ... tgcttttcagGACTCGGAAGCAATTGATTGTGAAGTATTCCTTTCAGTTCGGCTTGAAGTA
EST: gi|29642421|gb|CB647428.1|CB647428
EST:     ACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAA                         GACTCGGAAGCAATTGATTGTGAAGTATTCCTTTCAGTTCGGCTTGAAGTA
genomic: ACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAAgtaggtgaat ... tgcttttcagGACTCGGAAGCAATTGATTGTGAAGTATTCCTTTCAGTTCGGCTTGAAGTA
EST: gi|29642419|gb|CB647426.1|CB647426
EST:     ACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAA                         GACTCGGAAGCAATTGATTGTGAAGTATTCCTTTCAGTTCGGCTTGAAGTA
genomic: ACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAAgtaggtgaat ... tgcttttcagGACTCGGAAGCAATTGATTGTGAAGTATTCCTTTCAGTTCGGCTTGAAGTA
EST: gi|29661058|gb|CB657333.1|CB657333
EST:     ACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAA                         GACTCGGAAGCAATTGATTGTGAAGTATTCCTTTCAGTTCGGCTTGAAGTA
genomic: ACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAAgtaggtgaat ... tgcttttcagGACTCGGAAGCAATTGATTGTGAAGTATTCCTTTCAGTTCGGCTTGAAGTA
EST: gi|88359680|gb|CI622370.1|CI622370
EST:     ACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAA                         GACTCGGAAGCAATTGATTGTGAAGTATTCCTTTCAGTTCGGCTTGAAGTA
genomic: ACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAAgtaggtgaat ... tgcttttcagGACTCGGAAGCAATTGATTGTGAAGTATTCCTTTCAGTTCGGCTTGAAGTA
EST: gi|88391633|gb|CI600822.1|CI600822
EST:     ACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAA                         GACTCGGAAGCAATTGATTGTGAAGTATTCCTTT-AGTTCGGCTTGAAGTA
genomic: ACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAAgtaggtgaat ... tgcttttcagGACTCGGAAGCAATTGATTGTGAAGTATTCCTTTCAGTTCGGCTTGAAGTA
EST: gi|88288553|gb|CI663342.1|CI663342
EST:     ACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAA                         GACTCGGAAGCAATTGATTGTGAAGTATTCCTTTCAGTTCGGCTTGAAGTA
genomic: ACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAAgtaggtgaat ... tgcttttcagGACTCGGAAGCAATTGATTGTGAAGTATTCCTTTCAGTTCGGCTTGAAGTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTCCCCAAGCGCCGTGAATTGGTAGGACTTTTGTGGGAGGCGCTGGTTTCTGCTCTACTCACAGCAAGTTTCTAAAgtaggtgaatcctcacggctccggatctcctcttttgaggatttcccccgaattttgatcagatgttcgatgcttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG