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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagggtttctttcaatttcgttgattcattagttagaagaagcatttagttattgtaattaataatctcttgttgtttgtttaatcagTGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTTTGGATTTGGTTGTGAGATTGATGAAGAGACATCAAACAAACTTGAAG

Basic information

species Arabidopsis thaliana
transcript AT1G32580.1
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|124714016|gb|EH805418.1|EH805418
EST:     ATTGTTATGTTCAAACCCTAGCTAAAATTATCGGCAG                         TGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTT
genomic: ATTGTTATGTTCAAACCCTAGCTAAAATTATCGGCAGgttagggttt ... gtttaatcagTGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTT
EST: gi|86065047|gb|DR360804.1|DR360804
EST:     CAGCAAATGATTGATTGTTATGTTCAAACCCTAGCTAAAATTATCGGCAG                         TGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTT
genomic: CAGCAAATGATTGATTGTTATGTTCAAACCCTAGCTAAAATTATCGGCAGgttagggttt ... gtttaatcagTGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTT
EST: gi|124752466|gb|EH842596.1|EH842596
EST:     CTAAAATTATCGGCAG                         TGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTT
genomic: CTAAAATTATCGGCAGgttagggttt ... gtttaatcagTGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTT
EST: gi|164116169|gb|ES157726.1|ES157726
EST:     CAGCAAATGATTGATTGTTATGTTCAAACCCTAGCTAAAATTATCGGCAG                         TGAGGAAGAAGCTAAGAAGAAGA
genomic: CAGCAAATGATTGATTGTTATGTTCAAACCCTAGCTAAAATTATCGGCAGgttagggttt ... gtttaatcagTGAGGAAGAAGCTAAGAAGAAGA
EST: gi|86065048|gb|DR360805.1|DR360805
EST:     CAGCAAATGATTGATTGTTATGTTCAAACCCTAGCTAAAATTATCGGCAG                         TGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTT
genomic: CAGCAAATGATTGATTGTTATGTTCAAACCCTAGCTAAAATTATCGGCAGgttagggttt ... gtttaatcagTGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTT
EST: gi|86065046|gb|DR360803.1|DR360803
EST:     CAGCAAATGATTGATTGTTATGTTCAAACCCTAGCTAAAATTATCGGCAG                         TGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTT
genomic: CAGCAAATGATTGATTGTTATGTTCAAACCCTAGCTAAAATTATCGGCAGgttagggttt ... gtttaatcagTGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTT
EST: gi|125020666|gb|EL092935.1|EL092935
EST:     GTTATGTTCAAACCCTAGCTAAAATTATCGGCAG                         TGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTT
genomic: GTTATGTTCAAACCCTAGCTAAAATTATCGGCAGgttagggttt ... gtttaatcagTGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTT
EST: gi|116482448|gb|EG525040.1|EG525040
EST:     CAGCAAATGATTGATTGTTATGTTCAAACCCTAGCTAAAATTATCGGCAG                         TGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTT
genomic: CAGCAAATGATTGATTGTTATGTTCAAACCCTAGCTAAAATTATCGGCAGgttagggttt ... gtttaatcagTGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTT
EST: gi|86065043|gb|DR360800.1|DR360800
EST:     CAGCAAATGATTGATTGTTATGTTCAAACCCTAGCTAAAATTATCGGCAG                         TGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTT
genomic: CAGCAAATGATTGATTGTTATGTTCAAACCCTAGCTAAAATTATCGGCAGgttagggttt ... gtttaatcagTGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagaagaagcatttagttattgtaattaataatctcttgttgtttgtttaatcagTGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTTTGGATTTGGTTGTGAGATTGATGAAGAGACATCAAACAAACTTGAAG
                       aattaat  putative branch site (score: 3)
                                          tttgttt  putative PPT
          atttagttattgtaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagggtttctttcaatttcgttgattcattagttagaagaagcatttagttattgtaattaataatctcttgttgtttgtttaatcagTGAGGAAGAAGCTAAGAAGAAGATTTATAATGTATCGTGTGAAAGGTATTTTGGATTTGGTTGTGAGATTGATGAAGAGACATCAAACAAACTTGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG