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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttattctggtttatatgaatatttaaaagttcttctcatatatgtcacaccttagtaacaagattttctttttgtttgcagAAAGTGGACAACTACCATTCGAGAACGAGAAAAAGACAGACTAACTCCA

Basic information

species Arabidopsis thaliana
transcript AT1G67320.3
intron # 9
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|124984484|gb|EL057138.1|EL057138
EST:     GTCACACAATTTCGATCTCATCTATCAAAGGCCCTCATTCTAACAAACAG                         AAAGTGGACAACT-CCATTCGAGAACGAGAAAA-GACAGACTAACTCC
genomic: GTCACACAATTTCGATCTCATCTATCAAAGGCCCTCATTCTAACAAACAGgttattctgg ... ttgtttgcagAAAGTGGACAACTACCATTCGAGAACGAGAAAAAGACAGACTAACTCC
EST: gi|164160095|gb|EL967698.1|EL967698
EST:     GTCACACAATTTCGATCTCATCTATCAAAGGCCCTCATTCTAACAAACAG                         AAAGTGGACAACTACCATTCGAGAACGAGAAAAAGACAGACTAACTCCAAT
genomic: GTCACACAATTTCGATCTCATCTATCAAAGGCCCTCATTCTAACAAACAGgttattctgg ... ttgtttgcagAAAGTGGACAACTACCATTCGAGAACGAGAAAAAGACAGACTAACTCCAAT
EST: gi|124984711|gb|EL057349.1|EL057349
EST:     TCTATCAAAGGCCCTCATTCTAACAAACAG                         AAAGTGGACAACTACCATTCGAGAACGAGAAAAAGACAGACTAACTACCA
genomic: TCTATCAAAGGCCCTCATTCTAACAAACAGgttattctgg ... ttgtttgcagAAAGTGGACAACTACCATTCGAGAACGAGAAAAAGACAGACTAACT-CCA
EST: gi|164232934|gb|ES129184.1|ES129184
EST:     CAAAGGCCCTCATTCTAACAAACAG                         AAAGTGGACAACTACCATTCGAGAACGAGAAAAAAGACAGACTAACTCCA
genomic: CAAAGGCCCTCATTCTAACAAACAGgttattctgg ... ttgtttgcagAAAGTGGACAACTACCATTCGAGAACGAG-AAAAAGACAGACTAACTCCA
EST: gi|164063124|gb|ES149257.1|ES149257
EST:     CAAAGGCCCTCATTCTAACAAACAG                         T
genomic: CAAAGGCCCTCATTCTAACAAACAGgttattctgg ... ttgtttgcag-
EST: gi|164063124|gb|ES149257.1|ES149257
EST:     CAAAGGCCCTCATTCTAACAAACAG                         T
genomic: CAAAGGCCCTCATTCTAACAAACAGgttattctgg ... ttgtttgcag-
EST: gi|125119594|gb|EL167743.1|EL167743
EST:     TCTATCAAAGGCCCTCATTCTAACAAACAG                         AAAGTGGACAACTACCATTCGAGAACGAGAAAAAGACAGACTAACTCCA
genomic: TCTATCAAAGGCCCTCATTCTAACAAACAGgttattctgg ... ttgtttgcagAAAGTGGACAACTACCATTCGAGAACGAGAAAAAGACAGACTAACTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagttcttctcatatatgtcacaccttagtaacaagattttctttttgtttgcagAAAGTGGACAACTACCATTCGAGAACGAGAAAAAGACAGACTAACTCCA
                          tagtaac  putative branch site (score: 1)
                                     ttttctttttgtttgc  putative PPT
                                    attttctttttgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttattctggtttatatgaatatttaaaagttcttctcatatatgtcacaccttagtaacaagattttctttttgtttgcagAAAGTGGACAACTACCATTCGAGAACGAGAAAAAGACAGACTAACTCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA