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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagacacatgtgatattttaatatcaagaccaacatttgatctttttgtaagtttggtgtggttaaatgtgatattgtgtgtcgctctgcagGTCATCGAATTCGTAAAGAAGCATGTTGGTTCCGGAAATCCACTGTTAGCTGGAAACTCAGTCTATGTCGATTTCCTTTTCTTAAAG

Basic information

species Arabidopsis thaliana
transcript AT2G26970.1
intron # 5
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|125021987|gb|EL094256.1|EL094256
EST:     GGAAGCTGAGCAAAAG                         GTCATCGAATTCGTAAAGAAGCATGTTGGTTCCGGAAATCCACTGTTAGCT
genomic: GGAAGCTGAGCAAAAGgtaaagacac ... cgctctgcagGTCATCGAATTCGTAAAGAAGCATGTTGGTTCCGGAAATCCACTGTTAGCT
EST: gi|164158500|gb|EL972974.1|EL972974
EST:     CGAAGAAAGTGCTCCTCAGTGCGATAACTGAAAGGGAAGCTGAGCAAAAG                         GTCATCGAATTCGTAAAGAAGCATGTTGGTTCCGGAAATCCACTGT
genomic: CGAAGAAAGTGCTCCTCAGTGCGATAACTGAAAGGGAAGCTGAGCAAAAGgtaaagacac ... cgctctgcagGTCATCGAATTCGTAAAGAAGCATGTTGGTTCCGGAAATCCACTGT
EST: gi|164197471|gb|ES118207.1|ES118207
EST:     GATAACTGAAAGGGAAGCTGAGCAAAAG                         GTCATCGAATTCGTAAAGAAGCATGTTGGTTCCGGAAATCCACTGTTAGCT
genomic: GATAACTGAAAGGGAAGCTGAGCAAAAGgtaaagacac ... cgctctgcagGTCATCGAATTCGTAAAGAAGCATGTTGGTTCCGGAAATCCACTGTTAGCT
EST: gi|125233197|gb|EL247282.1|EL247282
EST:     TGCGATAACTGAAAGGGAAGCTGAGCAAAAG                         GTCATCGAATTCGTAAAGAAGCATGTTGGTTCCGGAAATCCACTGTTAGCT
genomic: TGCGATAACTGAAAGGGAAGCTGAGCAAAAGgtaaagacac ... cgctctgcagGTCATCGAATTCGTAAAGAAGCATGTTGGTTCCGGAAATCCACTGTTAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatctttttgtaagtttggtgtggttaaatgtgatattgtgtgtcgctctgcagGTCATCGAATTCGTAAAGAAGCATGTTGGTTCCGGAAATCCACTGTTAGCTGGAAACTCAGTCTATGTCGATTTCCTTTTCTTAAAG
 atttgat  putative branch site (score: 5)
                                            tcgctct  putative PPT
                         ttaaatgtgatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagacacatgtgatattttaatatcaagaccaacatttgatctttttgtaagtttggtgtggttaaatgtgatattgtgtgtcgctctgcagGTCATCGAATTCGTAAAGAAGCATGTTGGTTCCGGAAATCCACTGTTAGCTGGAAACTCAGTCTATGTCGATTTCCTTTTCTTAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA