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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGGCGGCTGCAGAACGTCATTTCTTGGAAGCAGACTATGATGAATATTCTGAGAATAACTCAAGCGGAGCTGCCTTTTGTCGCTCTGCTGCTCTCATCgtaagctctcagttgagaagatgttttcttaccatgatttaatactaaatgcctgcactctaacttctgtaatggcag

Basic information

species Arabidopsis thaliana
transcript AT3G47550.2
intron # 4
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|301501426|gb|HO206966.1|HO206966
EST:     CTGAGAATAACTCAAGCGGAGCTGCCTTTTGTCGCTCTGCTGCTCTCATC                         CTAATGGCACTTTTACTGTTACGAGATGCGCTAAATCTCA
genomic: CTGAGAATAACTCAAGCGGAGCTGCCTTTTGTCGCTCTGCTGCTCTCATCgtaagctctc ... gtaatggcagCTAATGGCACTTTTACTGTTACGAGATGCGCTAAATCTCA
EST: gi|116399259|gb|EG441851.1|EG441851
EST:     TGAGAATAAACTCA-GCGGAGCTGCCCTTTGTCGCTCTGCTGCTCTCATC                         CTAATGGCACTTTTACTGGTACGAGAATGCGCTAA-TCTCACCACGAACCC
genomic: TGAGAATAA-CTCAAGCGGAGCTGCCTTTTGTCGCTCTGCTGCTCTCATCgtaagctctc ... gtaatggcagCTAATGGCACTTTTACTGTTACGAGA-TGCGCTAAATCTCACAACGAACCC
EST: gi|124841356|gb|EH925793.1|EH925793
EST:     CTGAGAATAACTCAAGCGGAGCTGCCTTTTGTCGCTCTGCTGCTCTCATC                         CTAATGGCACTTTTA
genomic: CTGAGAATAACTCAAGCGGAGCTGCCTTTTGTCGCTCTGCTGCTCTCATCgtaagctctc ... gtaatggcagCTAATGGCACTTTTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATGGCGGCTGCAGAACGTCATTTCTTGGAAGCAGACTATGATGAATATTCTGAGAATAACTCAAGCGGAGCTGCCTTTTGTCGCTCTGCTGCTCTCATCgtaagctctcagttgagaagatgttttcttaccatgatttaatactaaatgcctgcactctaacttctgtaatggcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT