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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgttgtgattctaattgacttcctgaattccatctgctgcgggtattctgcagcacttattatgtaaaacatatttccagaatttgtagctaaatggaaatactatatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACGTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG

Basic information

species Arabidopsis thaliana
transcript AT3G06670.1
intron # 2
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:     GTAAATGGGGTGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116427932|gb|EG470524.1|EG470524
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116447731|gb|EG490323.1|EG490323
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116423237|gb|EG465829.1|EG465829
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116424515|gb|EG467107.1|EG467107
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116417449|gb|EG460041.1|EG460041
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAACCATCGACTTTGTGGAA                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116412443|gb|EG455035.1|EG455035
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116411545|gb|EG454137.1|EG454137
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116407356|gb|EG449948.1|EG449948
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116449069|gb|EG491661.1|EG491661
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116442487|gb|EG485079.1|EG485079
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116413313|gb|EG455905.1|EG455905
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116444990|gb|EG487582.1|EG487582
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116449085|gb|EG491677.1|EG491677
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116449109|gb|EG491701.1|EG491701
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116428347|gb|EG470939.1|EG470939
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116432099|gb|EG474691.1|EG474691
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116407371|gb|EG449963.1|EG449963
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116417526|gb|EG460118.1|EG460118
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116448708|gb|EG491300.1|EG491300
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116411537|gb|EG454129.1|EG454129
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116426306|gb|EG468898.1|EG468898
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116449103|gb|EG491695.1|EG491695
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|124856931|gb|EH941368.1|EH941368
EST:     GACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116460005|gb|EG502597.1|EG502597
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116434816|gb|EG477408.1|EG477408
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGCGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
EST: gi|116379504|gb|EG422096.1|EG422096
EST:     GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAG                         CGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG
genomic: GTAAATGGGATGATCGAGGAACTGGGCACGTAAGCATCGACTTTGTGGAGgtctgttgtg ... tatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgtaaaacatatttccagaatttgtagctaaatggaaatactatatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACGTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG
                           agctaaa  putative branch site (score: 3)
                                     aaatactatatgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctgttgtgattctaattgacttcctgaattccatctgctgcgggtattctgcagcacttattatgtaaaacatatttccagaatttgtagctaaatggaaatactatatgatgcagCGATCTGAAGAACTCAGTCTATGTGTAATTGATGAAGAAGATAACGAGACGTTACTTGTTCATCCCATCAACCCTGAGGATATTTACAGGAAACAAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG