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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAACCTTTTGTGGGCGGAGCGGGTGAAAGTGATATCAAGACACTTTATTCTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGATgtaagtcgtttcttcttgaatttggttcctatagacataaacgccaaactcttactgggaatttattgagttcccttctcgttgctaccacgttagaaaa...

Basic information

species Arabidopsis thaliana
transcript AT2G40660.1
intron # 2
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|116410067|gb|EG452659.1|EG452659
EST:     CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGAT                         GTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
genomic: CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGATgtaagtcgtt ... cctatttcagGTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
EST: gi|116410082|gb|EG452674.1|EG452674
EST:     CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGAT                         GTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
genomic: CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGATgtaagtcgtt ... cctatttcagGTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
EST: gi|116410078|gb|EG452670.1|EG452670
EST:     CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGAT                         GTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
genomic: CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGATgtaagtcgtt ... cctatttcagGTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
EST: gi|116410084|gb|EG452676.1|EG452676
EST:     CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGAT                         GTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
genomic: CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGATgtaagtcgtt ... cctatttcagGTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
EST: gi|47828784|gb|CK118468.1|CK118468
EST:     CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGAT                         GTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
genomic: CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGATgtaagtcgtt ... cctatttcagGTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
EST: gi|116410069|gb|EG452661.1|EG452661
EST:     CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGAT                         GTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
genomic: CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGATgtaagtcgtt ... cctatttcagGTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
EST: gi|116410080|gb|EG452672.1|EG452672
EST:     CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGAT                         GTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
genomic: CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGATgtaagtcgtt ... cctatttcagGTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
EST: gi|116411094|gb|EG453686.1|EG453686
EST:     CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGAT                         GTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
genomic: CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGATgtaagtcgtt ... cctatttcagGTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
EST: gi|116411098|gb|EG453690.1|EG453690
EST:     CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGAT                         GTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
genomic: CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGATgtaagtcgtt ... cctatttcagGTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
EST: gi|116410076|gb|EG452668.1|EG452668
EST:     CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGAT                         GTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
genomic: CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGATgtaagtcgtt ... cctatttcagGTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
EST: gi|116410074|gb|EG452666.1|EG452666
EST:     CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGAT                         GTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
genomic: CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGATgtaagtcgtt ... cctatttcagGTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
EST: gi|164144659|gb|ES051428.1|ES051428
EST:     CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGAT                         GTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT
genomic: CTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGATgtaagtcgtt ... cctatttcagGTTTTGAAGTGGCTAGATTTTGCGGAAGGTTTCTCTTCAGATTCAAAGGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAACCTTTTGTGGGCGGAGCGGGTGAAAGTGATATCAAGACACTTTATTCTAATGTATTGAAGGCATCTGGAAAGGAAGTATCTGCACAAAACAACGATgtaagtcgtttcttcttgaatttggttcctatagacataaacgccaaactcttactgggaatttattgagttcccttctcgttgctaccacgttagaaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gacataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccttctc