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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAGGGGGGAGGGGCGAGGCTTGACTGGAGAATGGCTGGGAGACAGAGAGACTGAACTGAGCTCAAGCCGCTCCGGGATCTCCATCTTGAGTTATCCAAGgtgagttttcttttccccctcttggtcaggctcgttcaggtttcttgggaaagtagaaatatttgctgttcggttatgtgcgcgaagatattaaatgtgc...

Basic information

species Oryza sativa
transcript LOC_Os02g43740.1
intron # 1
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|58652577|gb|CK041257.1|CK041257
EST:     ACTGAACTGAGCTCAAGCCGCTCCGGGATCTCCATCTTGAGTTATCCAAG                         AACTGAGAGTGCTCCCGGGTCCTACATTTGCCCTCTTTGGGCACCAATAAT
genomic: ACTGAACTGAGCTCAAGCCGCTCCGGGATCTCCATCTTGAGTTATCCAAGgtgagttttc ... ttctctgcagAACTGAGAGTGCTCCCGGCTCCTACATTTGCCCTCTTTGGGCACCAATAAT
EST: gi|88315440|gb|CI613709.1|CI613709
EST:     TGAACCTGAGCCTAAAGCCGCTCCGGGATCTCCATCTTGAGTTATCCAAG                         AACTGAGAGTGCTCCCGGCT-CTACATTTGCCCTCTTTGGGCACCAATAAT
genomic: TGAA-CTGAG-CTCAAGCCGCTCCGGGATCTCCATCTTGAGTTATCCAAGgtgagttttc ... ttctctgcagAACTGAGAGTGCTCCCGGCTCCTACATTTGCCCTCTTTGGGCACCAATAAT
EST: gi|58667309|gb|CK055995.1|CK055995
EST:     ACTGAACTGAGCTCAAGCCGCTCCGGGATCTCCATCTTGAGTTATCCAAG                         AACTGAGAGTGCTCCCGGCTCCTACATTTGCCCTCTTTGGGCACCAATAAT
genomic: ACTGAACTGAGCTCAAGCCGCTCCGGGATCTCCATCTTGAGTTATCCAAGgtgagttttc ... ttctctgcagAACTGAGAGTGCTCCCGGCTCCTACATTTGCCCTCTTTGGGCACCAATAAT
EST: gi|58671801|gb|CK060487.1|CK060487
EST:     ACTGAACTGAGCTCAAGCCGCTCCGGGATCTCCATCTTGAGTTATCCAAG                         AACTGAGAGTGCTCCCGGCTCCTACATTTGCCCTCTTTGGGCACCAATAAT
genomic: ACTGAACTGAGCTCAAGCCGCTCCGGGATCTCCATCTTGAGTTATCCAAGgtgagttttc ... ttctctgcagAACTGAGAGTGCTCCCGGCTCCTACATTTGCCCTCTTTGGGCACCAATAAT
EST: gi|88362343|gb|CI608734.1|CI608734
EST:     ACTGAACTGAGCTCAAGCCGCTCCGGGATCTCCATCTTGAGTTATCCAAG                         AACTGAGAGTGCTCCCGGCTCCTACATTTGCCCTCTTTGGGCACCAATAAT
genomic: ACTGAACTGAGCTCAAGCCGCTCCGGGATCTCCATCTTGAGTTATCCAAGgtgagttttc ... ttctctgcagAACTGAGAGTGCTCCCGGCTCCTACATTTGCCCTCTTTGGGCACCAATAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCAGGGGGGAGGGGCGAGGCTTGACTGGAGAATGGCTGGGAGACAGAGAGACTGAACTGAGCTCAAGCCGCTCCGGGATCTCCATCTTGAGTTATCCAAGgtgagttttcttttccccctcttggtcaggctcgttcaggtttcttgggaaagtagaaatatttgctgttcggttatgtgcgcgaagatattaaatgtgc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccccctc