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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaagtgaagtattattgggttgttttttcaactcattatatatgaaaacgacactcatggaatggtttttggaatgtagAGTAACCGGAGGACGATAATGGATGATCCATTCATCAGAAACTACATGGAAGATCTGCTGAAGAAAGTGAGAACACAAGTGTTACTGAAGCTGATTAAGC

Basic information

species Arabidopsis thaliana
transcript AT2G26990.1
intron # 9
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|124716933|gb|EH808335.1|EH808335
EST:     TCGCAGCATATCAACGAAATGAGATCATAGAGTTTGAGAGAATACTAAAG                         AGTAACCGGAGGACGATAATGGATGATCCA
genomic: TCGCAGCATATCAACGAAATGAGATCATAGAGTTTGAGAGAATACTAAAGgtaaaaagtg ... tggaatgtagAGTAACCGGAGGACGATAATGGATGATCCA
EST: gi|86080149|gb|DR375906.1|DR375906
EST:     CGAAATGAGATCATAGAGTTTGAGAGAATMCTAAAG                         AGTAACCGGAGGACGATAATGGATGATCCATTCATCAGAAACTACATGGAA
genomic: CGAAATGAGATCATAGAGTTTGAGAGAATACTAAAGgtaaaaagtg ... tggaatgtagAGTAACCGGAGGACGATAATGGATGATCCATTCATCAGAAACTACATGGAA
EST: gi|86077665|gb|DR373422.1|DR373422
EST:     TCGCAGCATATMAACGAAATGAGAYCATAGAGTTTGAGAGAATACTAAAG                         AGTAMCCGGAGGACGATAATGGATGATCCATTCATCAGAAAACTACATGGA
genomic: TCGCAGCATATCAACGAAATGAGATCATAGAGTTTGAGAGAATACTAAAGgtaaaaagtg ... tggaatgtagAGTAACCGGAGGACGATAATGGATGATCCATTCATCAG-AAACTACATGGA
EST: gi|86049784|gb|DR345539.1|DR345539
EST:     TCGCAGCATATCAACGAAATGAGATCATAGAGTTTGAGAGAATACTAAAG                         AGTAACCGGAG-ACGATAATGGATGATCCATTCATCAGAAACTACATGGAA
genomic: TCGCAGCATATCAACGAAATGAGATCATAGAGTTTGAGAGAATACTAAAGgtaaaaagtg ... tggaatgtagAGTAACCGGAGGACGATAATGGATGATCCATTCATCAGAAACTACATGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcaactcattatatatgaaaacgacactcatggaatggtttttggaatgtagAGTAACCGGAGGACGATAATGGATGATCCATTCATCAGAAACTACATGGAAGATCTGCTGAAGAAAGTGAGAACACAAGTGTTACTGAAGCTGATTAAGC
                                         ttttt  CT-rich tract
        tcattatatatgaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaaaagtgaagtattattgggttgttttttcaactcattatatatgaaaacgacactcatggaatggtttttggaatgtagAGTAACCGGAGGACGATAATGGATGATCCATTCATCAGAAACTACATGGAAGATCTGCTGAAGAAAGTGAGAACACAAGTGTTACTGAAGCTGATTAAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT