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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtttttttgcgtcgtggtttaattagctaagatattttggggttttctggttttttggataattggtatctgtttcaatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAAGCTTTCAAGAGACTGCAGGGTGCTCTTATGTATG

Basic information

species Arabidopsis thaliana
transcript AT3G06670.2
intron # 3
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|116424226|gb|EG466818.1|EG466818
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116427932|gb|EG470524.1|EG470524
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116447731|gb|EG490323.1|EG490323
EST:     GTTACTTGTTCATCCCATCGACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGACTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116423237|gb|EG465829.1|EG465829
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116424515|gb|EG467107.1|EG467107
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116417449|gb|EG460041.1|EG460041
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACC
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACC
EST: gi|116412443|gb|EG455035.1|EG455035
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116411545|gb|EG454137.1|EG454137
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116407356|gb|EG449948.1|EG449948
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116449069|gb|EG491661.1|EG491661
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116413313|gb|EG455905.1|EG455905
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116444990|gb|EG487582.1|EG487582
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116449085|gb|EG491677.1|EG491677
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116449109|gb|EG491701.1|EG491701
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116428347|gb|EG470939.1|EG470939
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116432099|gb|EG474691.1|EG474691
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116407371|gb|EG449963.1|EG449963
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116417526|gb|EG460118.1|EG460118
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116448708|gb|EG491300.1|EG491300
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116411537|gb|EG454129.1|EG454129
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAGCAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116426306|gb|EG468898.1|EG468898
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116449103|gb|EG491695.1|EG491695
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116460005|gb|EG502597.1|EG502597
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116434816|gb|EG477408.1|EG477408
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGATCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
EST: gi|116379504|gb|EG422096.1|EG422096
EST:     GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG                         ACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA
genomic: GTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAGgtagtttttt ... caatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatattttggggttttctggttttttggataattggtatctgtttcaatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAAGCTTTCAAGAGACTGCAGGGTGCTCTTATGTATG
                                      tctgtttc  CT-rich tract
                    ttttttggataatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtttttttgcgtcgtggtttaattagctaagatattttggggttttctggttttttggataattggtatctgtttcaatgtacagACACAATAATCTCATGGAGAGACCCAGAGCGCTCAACAGAATTGGCTTTAAGCTTTCAAGAGACTGCAGGGTGCTCTTATGTATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG