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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTCTCTCTTCTCTGCTCGTCAGATCTCAAAATCAATCGGATATCGAAACCACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatttcgattctttcgggtttgttctcgttttttgattttgattctagggttttggaataatccctcgtttgtttttttttctctagggttttg...

Basic information

species Arabidopsis thaliana
transcript AT3G52560.2
intron # 1
splice site 5'
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|86018900|gb|DR314646.1|DR314646
EST:     CACAACTTCATCAATTATNACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018875|gb|DR314621.1|DR314621
EST:     CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018902|gb|DR314648.1|DR314648
EST:     CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018872|gb|DR314618.1|DR314618
EST:     CACAACTTCATCAATTATNACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018874|gb|DR314620.1|DR314620
EST:     CACAACTTCATCAATTADNACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018885|gb|DR314631.1|DR314631
EST:     CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018891|gb|DR314637.1|DR314637
EST:     CACAACTTCATCAATTATVACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018896|gb|DR314642.1|DR314642
EST:     ACAACTTCATCAATTATDGACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: ACAACTTCATCAATTAT-GACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018898|gb|DR314644.1|DR314644
EST:     CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018881|gb|DR314627.1|DR314627
EST:     TCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: TCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|116475438|gb|EG518030.1|EG518030
EST:     CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018878|gb|DR314624.1|DR314624
EST:     CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018884|gb|DR314630.1|DR314630
EST:     CACAACTTCATCAATTATNACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAAAGGGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018901|gb|DR314647.1|DR314647
EST:     CACAACTTCATCAATTATNACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018887|gb|DR314633.1|DR314633
EST:     CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018871|gb|DR314617.1|DR314617
EST:     CACAACTTCATCAATTATDACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018880|gb|DR314626.1|DR314626
EST:     CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018883|gb|DR314629.1|DR314629
EST:     CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|116475442|gb|EG518034.1|EG518034
EST:     CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018899|gb|DR314645.1|DR314645
EST:     CACAACTTCATCAATTAKNACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018895|gb|DR314641.1|DR314641
EST:     CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018882|gb|DR314628.1|DR314628
EST:     CACAACTTCATCAATTATNACTCTTCGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
EST: gi|86018873|gb|DR314619.1|DR314619
EST:     CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTG                         TTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA
genomic: CACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatt ... tgcaatatagTTCCGAGGAATTTTCGGTTGTTGGAGGAGCTTGAACGTGGGGAGAAAGGTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGTCTCTCTTCTCTGCTCGTCAGATCTCAAAATCAATCGGATATCGAAACCACAACTTCATCAATTATGACTCTTGGCTCAGGAGGATCTAGCGTTGTTGgtataaaatttcgattctttcgggtttgttctcgttttttgattttgattctagggttttggaataatccctcgtttgtttttttttctctagggttttg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT