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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttaattaatgatgtggtttggcttaacgcgcatagatttgtattccaaattagggtttgaatcttaagttccaagtctcttaaaagtttattaatatagGGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCCAGAGACTTGGTCGAGGAACCATCGCAGAGTAATGAGAAGCTGGAAGATC

Basic information

species Arabidopsis thaliana
transcript AT4G20095.1
intron # 1
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|116482087|gb|EG524679.1|EG524679
EST:     TCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAG                         GGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC
genomic: TCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAGgtgagttctg ... attaatatagGGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC
EST: gi|116482090|gb|EG524682.1|EG524682
EST:     TCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAG                         GGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC
genomic: TCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAGgtgagttctg ... attaatatagGGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC
EST: gi|116482094|gb|EG524686.1|EG524686
EST:     TCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAG                         GGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC
genomic: TCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAGgtgagttctg ... attaatatagGGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC
EST: gi|116482098|gb|EG524690.1|EG524690
EST:     TCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAG                         GGTTTATATGTTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC
genomic: TCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAGgtgagttctg ... attaatatagGGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC
EST: gi|116482095|gb|EG524687.1|EG524687
EST:     TCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAG                         GGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC
genomic: TCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAGgtgagttctg ... attaatatagGGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC
EST: gi|116482083|gb|EG524675.1|EG524675
EST:     TCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAG                         GGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC
genomic: TCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAGgtgagttctg ... attaatatagGGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC
EST: gi|116482075|gb|EG524667.1|EG524667
EST:     TCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAG                         GGTTTATATATTTGCCAAGAACTGGGTAACGGAATGTGGAAGCAAGAAGCC
genomic: TCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAGgtgagttctg ... attaatatagGGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC
EST: gi|116482089|gb|EG524681.1|EG524681
EST:     CCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAG                         GGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC
genomic: -CCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAGgtgagttctg ... attaatatagGGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC
EST: gi|116482091|gb|EG524683.1|EG524683
EST:     TCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAG                         GGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC
genomic: TCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAGgtgagttctg ... attaatatagGGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC
EST: gi|116482084|gb|EG524676.1|EG524676
EST:     TCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAG                         GGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC
genomic: TCCATTGTATATTCTTCTTGCGATCTCGTCAAATTTCATAGGTGAAGAAGgtgagttctg ... attaatatagGGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaaattagggtttgaatcttaagttccaagtctcttaaaagtttattaatatagGGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCCAGAGACTTGGTCGAGGAACCATCGCAGAGTAATGAGAAGCTGGAAGATC
                                            tattaat  putative branch site (score: 2)
                               tctcttaaaagtttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cttaattaatgatgtggtttggcttaacgcgcatagatttgtattccaaattagggtttgaatcttaagttccaagtctcttaaaagtttattaatatagGGTTTATATATTTGCCAAGAAATGGGTAACGGAATGTGGAAGCAAGAAGCCAGAGACTTGGTCGAGGAACCATCGCAGAGTAATGAGAAGCTGGAAGATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA