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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatagcaagagggcttgtagcatatcagctggaatcaactgtagatgttataacctccgtaattagatttagttgatgtttacttgtacttgtagttatatttaattagttgatgtttacttgtaccagGTTATTGGTGTCGAACCCACGGAAAGTGCTATACTTTCTGGTGGAAAACCCG

Basic information

species Arabidopsis thaliana
transcript AT2G43750.2
intron # 6
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|164027961|gb|ES179595.1|ES179595
EST:     CACTGGTGTTGGTCGATTCATTAAAGAAAGAAAACCTGAATTGAAG                         GTTATTGGTGTCGAACCCACGGAAAGTGCTATACTTTCTGGTGGAAA-CCC
genomic: CACTGGTGTTGGTCGATTCATTAAAGAAAGAAAACCTGAATTGAAGgtacatagca ... cttgtaccagGTTATTGGTGTCGAACCCACGGAAAGTGCTATACTTTCTGGTGGAAAACCC
EST: gi|125140809|gb|EL178822.1|EL178822
EST:     ATCACTGGTGTTGGTCGATTCATTAAAGAAAGAAAACCTGAATTGAAG                         GTTATTGGTGTCGAACCCACGGAAAGTGCTATACTTTCTGGTGGAAAACCC
genomic: ATCACTGGTGTTGGTCGATTCATTAAAGAAAGAAAACCTGAATTGAAGgtacatagca ... cttgtaccagGTTATTGGTGTCGAACCCACGGAAAGTGCTATACTTTCTGGTGGAAAACCC
EST: gi|124705051|gb|EH796453.1|EH796453
EST:     CTATCACTGGTGTTGGTCGATTCATTAAAGAAAGAAAACCTGAATTGAAG                         GTTATTGGTGTCGAACCCACGGAAAGTGCTATACTTTCTGGTGGAAAACCC
genomic: CTATCACTGGTGTTGGTCGATTCATTAAAGAAAGAAAACCTGAATTGAAGgtacatagca ... cttgtaccagGTTATTGGTGTCGAACCCACGGAAAGTGCTATACTTTCTGGTGGAAAACCC
EST: gi|125273257|gb|EL287342.1|EL287342
EST:     CTATCACTGGTGTTGGTCGATTCATTAAAGAAAGAAAACCTGAATTGAAG                         GTTATTGGTGTCGAACCCACGGAAAGTGCTATACTTT
genomic: CTATCACTGGTGTTGGTCGATTCATTAAAGAAAGAAAACCTGAATTGAAGgtacatagca ... cttgtaccagGTTATTGGTGTCGAACCCACGGAAAGTGCTATACTTT
EST: gi|125082735|gb|EL143541.1|EL143541
EST:     CTATCACTGGTGTTGGTCGATTCATTAAAGAAAGAAAACCTGAATTGAAG                         GTTATTGGTGTCGAACCCACGGAAAGTGCTATACCTTCTGGTGGAAAACCC
genomic: CTATCACTGGTGTTGGTCGATTCATTAAAGAAAGAAAACCTGAATTGAAGgtacatagca ... cttgtaccagGTTATTGGTGTCGAACCCACGGAAAGTGCTATACTTTCTGGTGGAAAACCC
EST: gi|124985277|gb|EL057877.1|EL057877
EST:     CTATCACTGGTGTTGGTCGATTCATTAAAGAAAGAAAACCTGAATTGAAG                         GTTATTGGTGTC
genomic: CTATCACTGGTGTTGGTCGATTCATTAAAGAAAGAAAACCTGAATTGAAGgtacatagca ... cttgtaccagGTTATTGGTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgtttacttgtacttgtagttatatttaattagttgatgtttacttgtaccagGTTATTGGTGTCGAACCCACGGAAAGTGCTATACTTTCTGGTGGAAAACCCG
                                         tttactt  CT-rich tract
                  tagttatatttaatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacatagcaagagggcttgtagcatatcagctggaatcaactgtagatgttataacctccgtaattagatttagttgatgtttacttgtacttgtagttatatttaattagttgatgtttacttgtaccagGTTATTGGTGTCGAACCCACGGAAAGTGCTATACTTTCTGGTGGAAAACCCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA