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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttggagttatagtacatagacatgcatggagttgttacattttgtggtgccatagaaccagagtagaggtttgattagatattgttgtgtgcttttatagAGGAGAAGAAGGGGAAGATTGCTGAGATCAAGTCTGGAATAGACGAAGCTGATGTCTTG

Basic information

species Arabidopsis thaliana
transcript AT1G26670.1
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|116443661|gb|EG486253.1|EG486253
EST:     AACCAATCTCTCTAGAAAATGTCACTCTGCATCGGTTCTCTCCAACGGAG                         AGGAGAAGAAGGGGAAGATTGCTGAGATCAAGTCTGGAATAAACGAAGCTG
genomic: AACCAATCTCTCTAGAAAATGTCACTCTGCATCGGTTCTCTCCAACGGAGgtaaaatcca ... gcttttatagAGGAGAAGAAGGGGAAGATTGCTGAGATCAAGTCTGGAATAGACGAAGCTG
EST: gi|86077252|gb|DR373009.1|DR373009
EST:     AACCAATCTCTCTAGAAAATGTCACTCTGCATCGGTTCTCTCCAACGGAG                         AGGAGAAGAAGGGGAAGATTGCTCAGATCAAGTCTGGAATAGACGAAGCTG
genomic: AACCAATCTCTCTAGAAAATGTCACTCTGCATCGGTTCTCTCCAACGGAGgtaaaatcca ... gcttttatagAGGAGAAGAAGGGGAAGATTGCTGAGATCAAGTCTGGAATAGACGAAGCTG
EST: gi|125017285|gb|EL089554.1|EL089554
EST:     AACCAATCTCTCTAGAAAATGTCACTCTGCATCGGTTCTCTCCAACGGAG                         AGGAGAAGAAG
genomic: AACCAATCTCTCTAGAAAATGTCACTCTGCATCGGTTCTCTCCAACGGAGgtaaaatcca ... gcttttatagAGGAGAAGAAG
EST: gi|125276515|gb|EL290600.1|EL290600
EST:     CTAGAAAATGTCACTCTGCATCGGTTCTCTCCAACGGAG                         AGGAGAAGAAGGGGAAGATTG
genomic: CTAGAAAATGTCACTCTGCATCGGTTCTCTCCAACGGAGgtaaaatcca ... gcttttatagAGGAGAAGAAGGGGAAGATTG
EST: gi|116443658|gb|EG486250.1|EG486250
EST:     TCTCCAACGGAG                         AGGAGAAGAAGGGGAAGATTGCTGAGATCAAGTCTGGAATAGACGAAGCTG
genomic: TCTCCAACGGAGgtaaaatcca ... gcttttatagAGGAGAAGAAGGGGAAGATTGCTGAGATCAAGTCTGGAATAGACGAAGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtgccatagaaccagagtagaggtttgattagatattgttgtgtgcttttatagAGGAGAAGAAGGGGAAGATTGCTGAGATCAAGTCTGGAATAGACGAAGCTGATGTCTTG
                       gtttgat  putative branch site (score: 5)
                                            tgctttt  putative PPT
                        tttgattagatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttggagttatagtacatagacatgcatggagttgttacattttgtggtgccatagaaccagagtagaggtttgattagatattgttgtgtgcttttatagAGGAGAAGAAGGGGAAGATTGCTGAGATCAAGTCTGGAATAGACGAAGCTGATGTCTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - -acataga
- - - - - - - - - - - - - - - - - - - - - - - - - - - -aaccaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtttga