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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGAGTGGTTGCGGATTCTGAAGAAACTATAAAACAATCTGCAGAATCCTTGGGGAAAGATGGCTTCATCAACTACTTTGGCTTGCAGgtactattctcttgtcgagttgtaatgatatatatgttattttctctttttagtttttagtagctaattcaacttacacttttgcattgtggtatcgagtagtacttgaatattatcaaatagaaatattttcttatgaattttgtaattgtgtgacag

Basic information

species Arabidopsis thaliana
transcript AT3G04820.1
intron # 9
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|116421231|gb|EG463823.1|EG463823
EST:     CTGCAGAATCCTTGGGGAAAGATGGCTTCATCAACTACTTTGGCTTGCAG                         CGTTTTGGAAGTGGTTCAGTACCAACCCACCATGTAGGAGCTGCACTATTG
genomic: CTGCAGAATCCTTGGGGAAAGATGGCTTCATCAACTACTTTGGCTTGCAGgtactattct ... tgtgtgacagCGTTTTGGAAGTGGTTCAGTACCAACCCACCATGTAGGAGCTGCACTATTG
EST: gi|116421229|gb|EG463821.1|EG463821
EST:     CTGCAGAATCCTTGGGGAAAGATGGCTTCATCAACTACTTTGGCATGCAG                         CGTTTTGGAAGTGGTTCAGTACCAACCCACCATGTAGGAGCTGCACTATTG
genomic: CTGCAGAATCCTTGGGGAAAGATGGCTTCATCAACTACTTTGGCTTGCAGgtactattct ... tgtgtgacagCGTTTTGGAAGTGGTTCAGTACCAACCCACCATGTAGGAGCTGCACTATTG
EST: gi|116457910|gb|EG500502.1|EG500502
EST:     CTGCAGAATCCTTGGGGAAAGATGGCTTCATCAACTACTTTGGCTTGCAG                         CGTTTTGGAAGTGGTTCAGTACCAACCCACCATGTAGGAGCTGCACTATTG
genomic: CTGCAGAATCCTTGGGGAAAGATGGCTTCATCAACTACTTTGGCTTGCAGgtactattct ... tgtgtgacagCGTTTTGGAAGTGGTTCAGTACCAACCCACCATGTAGGAGCTGCACTATTG
EST: gi|116457913|gb|EG500505.1|EG500505
EST:     TTTGGCTTGCAG                         CGTTTTGGAAGTGGTTCAGTACCAACCCACCATGTAGGAGCTGCACTATTG
genomic: TTTGGCTTGCAGgtactattct ... tgtgtgacagCGTTTTGGAAGTGGTTCAGTACCAACCCACCATGTAGGAGCTGCACTATTG
EST: gi|116457919|gb|EG500511.1|EG500511
EST:     TTTGGCTTGCAG                         CGTTTTGGAAGTGGTTCAGTACCAACCCACCATGTAGGAGCTGCACTATTG
genomic: TTTGGCTTGCAGgtactattct ... tgtgtgacagCGTTTTGGAAGTGGTTCAGTACCAACCCACCATGTAGGAGCTGCACTATTG
EST: gi|116457901|gb|EG500493.1|EG500493
EST:     CTGCAGAATCCTTGGGGAAAGATGGCTTCATCAACTACTTTGGCTTGCAG                         CGTTTTGGAAGTGGTTCAGTACCAACCCACCATGTAGGAGCTGCACTATTG
genomic: CTGCAGAATCCTTGGGGAAAGATGGCTTCATCAACTACTTTGGCTTGCAGgtactattct ... tgtgtgacagCGTTTTGGAAGTGGTTCAGTACCAACCCACCATGTAGGAGCTGCACTATTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGGAGTGGTTGCGGATTCTGAAGAAACTATAAAACAATCTGCAGAATCCTTGGGGAAAGATGGCTTCATCAACTACTTTGGCTTGCAGgtactattctcttgtcgagttgtaatgatatatatgttattttctctttttagtttttagtagctaattcaacttacacttttgcattgtggtatcgagtagtacttgaatattatcaaatagaaatattttcttatgaattttgtaattgtgtgacag

- - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG