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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcgtaaaaaatctttgtatttacttggagatcttgaatgattataagaaaccttaaattctcattccttgtgcagTGGGTGCCCCAAGAAGCTCTCTCTTCGCCCATAACCTCTGCATCTTACTCATGCAACAGCCAACTGGTTTACGCGTCATTCGCTGATGGAAACATTGCAG

Basic information

species Arabidopsis thaliana
transcript AT3G16830.1
intron # 23
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|86064674|gb|DR360431.1|DR360431
EST:     AGACACAGCTCGCCATTTACGATGCTTCGAAGATGGAATGCATTCATAAG                         TGGGTGCCCCAAGAAGCTCTCTCTTCGCCCATAACCTCTGCATCTTACTCA
genomic: AGACACAGCTCGCCATTTACGATGCTTCGAAGATGGAATGCATTCATAAGgtatcgtaaa ... ccttgtgcagTGGGTGCCCCAAGAAGCTCTCTCTTCGCCCATAACCTCTGCATCTTACTCA
EST: gi|125048536|gb|EL120805.1|EL120805
EST:     CAGCTCGCCATTTACGATGCTTCGAAGATGGAATGCATTCATAAG                         TGGGTGCCCCAAGAAGCTCTCTCTTCGCCCATAACCTCTGCATCTTA
genomic: CAGCTCGCCATTTACGATGCTTCGAAGATGGAATGCATTCATAAGgtatcgtaaa ... ccttgtgcagTGGGTGCCCCAAGAAGCTCTCTCTTCGCCCATAACCTCTGCATCTTA
EST: gi|125300280|gb|EL314365.1|EL314365
EST:     TGCTTCGAAGATGGAATGCATTCATAAG                         TGGGTGCCCCAAGAAGCTCTCTCTTCGCCCATAACCTCTGCATCTTACTCA
genomic: TGCTTCGAAGATGGAATGCATTCATAAGgtatcgtaaa ... ccttgtgcagTGGGTGCCCCAAGAAGCTCTCTCTTCGCCCATAACCTCTGCATCTTACTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacttggagatcttgaatgattataagaaaccttaaattctcattccttgtgcagTGGGTGCCCCAAGAAGCTCTCTCTTCGCCCATAACCTCTGCATCTTACTCATGCAACAGCCAACTGGTTTACGCGTCATTCGCTGATGGAAACATTGCAG
                                     ttctcattccttgt  CT-rich tract
               aatgattataagaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatcgtaaaaaatctttgtatttacttggagatcttgaatgattataagaaaccttaaattctcattccttgtgcagTGGGTGCCCCAAGAAGCTCTCTCTTCGCCCATAACCTCTGCATCTTACTCATGCAACAGCCAACTGGTTTACGCGTCATTCGCTGATGGAAACATTGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA