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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGTTCCCCCAACCGGAAGAGAAATTCAAAGATCAGAAAACGGTGAAAGATGCGACGACGACCAGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcctaaacccaatttcattgttttctctcgaatcagatttgattgaatttgggcttttaattctctatacatcaaaaacag

Basic information

species Arabidopsis thaliana
transcript AT4G27040.3
intron # 3
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|116404485|gb|EG447077.1|EG447077
EST:     AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGGGAAAATGTAGCCAAGTTACGGACTGATATG
genomic: AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
EST: gi|116404457|gb|EG447049.1|EG447049
EST:     AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
genomic: AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
EST: gi|116404471|gb|EG447063.1|EG447063
EST:     AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
genomic: AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
EST: gi|116404489|gb|EG447081.1|EG447081
EST:     AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
genomic: AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
EST: gi|116404468|gb|EG447060.1|EG447060
EST:     AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
genomic: AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
EST: gi|116404480|gb|EG447072.1|EG447072
EST:     AGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
genomic: AGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
EST: gi|116404481|gb|EG447073.1|EG447073
EST:     AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
genomic: AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
EST: gi|116404466|gb|EG447058.1|EG447058
EST:     AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
genomic: AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
EST: gi|116404478|gb|EG447070.1|EG447070
EST:     AATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
genomic: AATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
EST: gi|116404474|gb|EG447066.1|EG447066
EST:     AGGAATTGGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
genomic: AGGAATT-GGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
EST: gi|116404418|gb|EG447010.1|EG447010
EST:     TGCGACGACGACCAGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATA
genomic: TGCGACGACGACCAGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATA
EST: gi|116404364|gb|EG446956.1|EG446956
EST:     AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
genomic: AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
EST: gi|116404356|gb|EG446948.1|EG446948
EST:     AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
genomic: AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
EST: gi|116404487|gb|EG447079.1|EG447079
EST:     AATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
genomic: AATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
EST: gi|116404417|gb|EG447009.1|EG447009
EST:     TGCGACGACGACCAGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATA
genomic: TGCGACGACGACCAGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATA
EST: gi|116404482|gb|EG447074.1|EG447074
EST:     GAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTATCTAGGAGAAAATGTAGCCAAGTTACGGACTGATAT
genomic: GAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTA-CTAGGAGAAAATGTAGCCAAGTTACGGACTGATAT
EST: gi|116404362|gb|EG446954.1|EG446954
EST:     AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
genomic: AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
EST: gi|116404459|gb|EG447051.1|EG447051
EST:     GGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
genomic: GGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
EST: gi|116404461|gb|EG447053.1|EG447053
EST:     AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
genomic: AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
EST: gi|116404472|gb|EG447064.1|EG447064
EST:     AGGAATTGGAGGATTACAATAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
genomic: AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
EST: gi|116404455|gb|EG447047.1|EG447047
EST:     AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
genomic: AGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATATG
EST: gi|116404396|gb|EG446988.1|EG446988
EST:     TGCGACGACGACCAGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGG                         GATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATA
genomic: TGCGACGACGACCAGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcc ... tcaaaaacagGATCAGTACCGGTTACTAGGAGAAAATGTAGCCAAGTTACGGACTGATA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGTTCCCCCAACCGGAAGAGAAATTCAAAGATCAGAAAACGGTGAAAGATGCGACGACGACCAGGAATTGGAGGATTACAAAAGGCCGCAGCTGCTAGGgtattgatcctaaacccaatttcattgttttctctcgaatcagatttgattgaatttgggcttttaattctctatacatcaaaaacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT