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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggattatcttatgtgaatgtatgatgttgtcctgtggatgtatgatggatccattaatcatgtttattgggtttttttttattccctcaattgaacttgcagCTGAGGCAGAGAGAATAAGAAAGTGTCGAGGACGAGTGTTTGCTCTTAGAGATGAACCTGAAGTTTGTAGAGTTTGGCTGCCAAATTGTGACTCACCTGG

Basic information

species Arabidopsis thaliana
transcript AT3G02750.1
intron # 4
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|125302097|gb|EL316182.1|EL316182
EST:     TACTCTTGTCGCTGTTCAACTTACTGTGGATCTTAAGCCAAATCTCCCAG                         CTGAGGCAGAGAGAAATAAGAAAGTGTCGAGGACGAGTGTTTGCT
genomic: TACTCTTGTCGCTGTTCAACTAACTGTGGATCTTAAGCCAAATCTCCCAGgttggattat ... gaacttgcagCTGAGGCAGAGAGAA-TAAGAAAGTGTCGAGGACGAGTGTTTGCT
EST: gi|125121421|gb|EL168610.1|EL168610
EST:     TACTCTTGTCGCTGTTCAACTAACTGTGGATCTTAAGCCAAATCTCCCAG                         CTGAGGCAGAGAGAATAAGAAAGTGTCGAGGACGAGTGTTTGCTCTTA
genomic: TACTCTTGTCGCTGTTCAACTAACTGTGGATCTTAAGCCAAATCTCCCAGgttggattat ... gaacttgcagCTGAGGCAGAGAGAATAAGAAAGTGTCGAGGACGAGTGTTTGCTCTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatccattaatcatgtttattgggtttttttttattccctcaattgaacttgcagCTGAGGCAGAGAGAATAAGAAAGTGTCGAGGACGAGTGTTTGCTCTTAGAGATGAACCTGAAGTTTGTAGAGTTTGGCTGCCAAATTGTGACTCACCTGG
    cattaat  putative branch site (score: 3)
 tttattgggttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttggattatcttatgtgaatgtatgatgttgtcctgtggatgtatgatggatccattaatcatgtttattgggtttttttttattccctcaattgaacttgcagCTGAGGCAGAGAGAATAAGAAAGTGTCGAGGACGAGTGTTTGCTCTTAGAGATGAACCTGAAGTTTGTAGAGTTTGGCTGCCAAATTGTGACTCACCTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG