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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaccaacgccacagttatatttttaaacggaaacattttgaaattaatggtgtttttatgtaatatactctcactgtacatgttcatatttgtcttttaaagGATGTGGATTTGCTTCCAAAAGAAAATATCTATTCGGACGAGTGAGCATGAAGATCAAACTCATTCCCGGAGACTCTGCCGGTACGGTCACCGCTTTCTA

Basic information

species Arabidopsis thaliana
transcript AT5G65730.1
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|125175093|gb|EL195387.1|EL195387
EST:     TCAGAGCACTG                         GATGTGGATTTGCTTCCAAAAGAAAATATCTATTCGGACGAGTGAGACATG
genomic: TCAGAGCACTGgtacaccaac ... tcttttaaagGATGTGGATTTGCTTCCAAAAGAAAATATCTATTCGGACGAGTGAG-CATG
EST: gi|124959295|gb|EL033999.1|EL033999
EST:     TATCCAGCTCGTCCTTGATCAGAGCACTG                         GATGTGGATTTGCTTCCAAAAGAAAATATCTATTCGGACGAGTGAGCATGA
genomic: TATCCAGCTCGTCCTTGATCAGAGCACTGgtacaccaac ... tcttttaaagGATGTGGATTTGCTTCCAAAAGAAAATATCTATTCGGACGAGTGAGCATGA
EST: gi|116471906|gb|EG514498.1|EG514498
EST:     TCAAATGGAAGACGGAAAAGCTATCCAGCTCGTCCTTGATCAGAGCACTG                         GATGTGGATTTGCTTCCAAAAGAAAATATCTATTCGGACGAGTGAGCATGA
genomic: TCAAATGGAAGACGGAAAAGCTATCCAGCTCGTCCTTGATCAGAGCACTGgtacaccaac ... tcttttaaagGATGTGGATTTGCTTCCAAAAGAAAATATCTATTCGGACGAGTGAGCATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtgtttttatgtaatatactctcactgtacatgttcatatttgtcttttaaagGATGTGGATTTGCTTCCAAAAGAAAATATCTATTCGGACGAGTGAGCATGAAGATCAAACTCATTCCCGGAGACTCTGCCGGTACGGTCACCGCTTTCTA
                    ctctcac  putative branch site (score: 3)
                                         tttgtctttt  putative PPT
     tttttatgtaatatac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacaccaacgccacagttatatttttaaacggaaacattttgaaattaatggtgtttttatgtaatatactctcactgtacatgttcatatttgtcttttaaagGATGTGGATTTGCTTCCAAAAGAAAATATCTATTCGGACGAGTGAGCATGAAGATCAAACTCATTCCCGGAGACTCTGCCGGTACGGTCACCGCTTTCTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA