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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGATCGTGTGCCCACTGAATTGAAGAAAGCCATCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcatttttctctgtatctttctctttcttttactgtctttcgtcagtaattgaattcattgtatgggttttgattctgtag

Basic information

species Arabidopsis thaliana
transcript AT3G58680.1
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|86060838|gb|DR356595.1|DR356595
EST:     TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCGGGGAAAGCA
genomic: TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
EST: gi|86060848|gb|DR356605.1|DR356605
EST:     TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCGGGGAAAGCA
genomic: TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
EST: gi|86060834|gb|DR356591.1|DR356591
EST:     TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCGGGGAAAGCA
genomic: TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
EST: gi|86060837|gb|DR356594.1|DR356594
EST:     TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCGGGGAAAGCA
genomic: TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
EST: gi|164061465|gb|EL998855.1|EL998855
EST:     GTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCGGGGAAAGCA
genomic: GTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
EST: gi|125107742|gb|EL160932.1|EL160932
EST:     CTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
genomic: CTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
EST: gi|86080667|gb|DR376424.1|DR376424
EST:     TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCGGGGAAAGCA
genomic: TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
EST: gi|86060841|gb|DR356598.1|DR356598
EST:     TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCGGGGARAGCA
genomic: TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
EST: gi|86060833|gb|DR356590.1|DR356590
EST:     TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCGGGGAAAGCA
genomic: TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
EST: gi|125301011|gb|EL315096.1|EL315096
EST:     TGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGA
genomic: TGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGA
EST: gi|86060836|gb|DR356593.1|DR356593
EST:     TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCGGGGAAAGCA
genomic: TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
EST: gi|47830185|gb|CK119869.1|CK119869
EST:     TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
genomic: TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
EST: gi|164138147|gb|ES021968.1|ES021968
EST:     CAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCGGGGAAAGCA
genomic: CAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
EST: gi|164044824|gb|ES162485.1|ES162485
EST:     TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAA
genomic: TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAA
EST: gi|86060844|gb|DR356601.1|DR356601
EST:     TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCGGGGAAAGCA
genomic: TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
EST: gi|86060840|gb|DR356597.1|DR356597
EST:     TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCGGGGAAAGCA
genomic: TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
EST: gi|86060846|gb|DR356603.1|DR356603
EST:     TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCGGGGAAAGCA
genomic: TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
EST: gi|47831590|gb|CK121274.1|CK121274
EST:     TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
genomic: TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
EST: gi|86060839|gb|DR356596.1|DR356596
EST:     TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCGGGGAAAGCA
genomic: TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA
EST: gi|86060849|gb|DR356606.1|DR356606
EST:     TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCAT                         CTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCGGGGAAAGCA
genomic: TCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcat ... gattctgtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGATCGTGTGCCCACTGAATTGAAGAAAGCCATCATGCAAGCTAGAGGGGAGAAGAAGCTGACTCAGTCCCAACTTGCCCATgtactttcatttttctctgtatctttctctttcttttactgtctttcgtcagtaattgaattcattgtatgggttttgattctgtag

- - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA