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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGAAGCGGCTGCGGGAAGCGATTGTAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCGgtgagtcaccatttctatatagcttgtggtttttctcacgtacgatttggatagcttcgtttgtagtttttgcctgcacaatagtgatctgatctaaatt...

Basic information

species Oryza sativa
transcript LOC_Os03g18080.2
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|88696527|gb|CI740102.1|CI740102
EST:     TAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCG                         GAAGCTATGTACTTGTCATCACTTCTCAAAGGGACGC
genomic: TAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCGgtgagtcacc ... tttttatcagGAAGCTATGTACTTGTCATCACTTCTCAAAGGGACGC
EST: gi|33675005|gb|CF303244.1|CF303244
EST:     TAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCG                         GAAGCTATGTACTTGTCATCACTTCTCAAAGGGACGCTGGTTCATATCAGG
genomic: TAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCGgtgagtcacc ... tttttatcagGAAGCTATGTACTTGTCATCACTTCTCAAAGGGACGCTGGTTCATATCAGG
EST: gi|88412895|gb|CI576159.1|CI576159
EST:     TAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCG                         GAAGCTATGTACTTGTCATCACTTCTCAAAGGGACGCTGG
genomic: TAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCGgtgagtcacc ... tttttatcagGAAGCTATGTACTTGTCATCACTTCTCAAAGGGACGCTGG
EST: gi|88298501|gb|CI563496.1|CI563496
EST:     TAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCG                         GAAGCTATGTACTTGTCATCACTTCTCAAAGGGACGCTGGTTCATATCAGG
genomic: TAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCGgtgagtcacc ... tttttatcagGAAGCTATGTACTTGTCATCACTTCTCAAAGGGACGCTGGTTCATATCAGG
EST: gi|86888398|gb|CI303680.1|CI303680
EST:     TAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCG                         GAAGCTATGTACTTGTCATCACTTCTCA
genomic: TAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCGgtgagtcacc ... tttttatcagGAAGCTATGTACTTGTCATCACTTCTCA
EST: gi|117222519|gb|CT845898.1|CT845898
EST:     TAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCG                         GAAGCTATGTACTTGTCATCACTTCTCAAAGGGATGCTGGTTCATATCAGG
genomic: TAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCGgtgagtcacc ... tttttatcagGAAGCTATGTACTTGTCATCACTTCTCAAAGGGACGCTGGTTCATATCAGG
EST: gi|29624693|gb|CB629704.1|CB629704
EST:     TAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCG                         GAAGCTATGTACTTGTGATCACTTCTCAAAGGGACGCTGGTTCATATCAGG
genomic: TAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCGgtgagtcacc ... tttttatcagGAAGCTATGTACTTGTCATCACTTCTCAAAGGGACGCTGGTTCATATCAGG
EST: gi|88403694|gb|CI611349.1|CI611349
EST:     TACGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCG                         GAAGCTATGTACTTGTCATCACTTCTCAAAGGGACGCTGGTTCATATCAGG
genomic: TAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCGgtgagtcacc ... tttttatcagGAAGCTATGTACTTGTCATCACTTCTCAAAGGGACGCTGGTTCATATCAGG
EST: gi|86883987|gb|CI309935.1|CI309935
EST:     TAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCG                         GAAGCTATGTACTTGTCATCACTTCTCAAAGGGACGCTGGTTCATATCAGG
genomic: TAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCGgtgagtcacc ... tttttatcagGAAGCTATGTACTTGTCATCACTTCTCAAAGGGACGCTGGTTCATATCAGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGGAAGCGGCTGCGGGAAGCGATTGTAGGGTGTCGAAGATTTACGGAGTGGCTGGCGTGATCAGGTTGCTCGCCGgtgagtcaccatttctatatagcttgtggtttttctcacgtacgatttggatagcttcgtttgtagtttttgcctgcacaatagtgatctgatctaaatt

- - - - - - - - - - - - - - - -  CGAAGA