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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGGAACTTGTCGACGTGGCTCACTGTGTTCACCGATGCCGTAACATGTTGCTCTCTGGCCTCTCTAAAATCATTCATCATGTTCCTGTTCATCGTTGCAGgttactttcactctgtctcatctctgtgtttgatttgctgatacttcctattgcttgtttaagcgttttatataatctatacaaccagaatttgatcctt...

Basic information

species Arabidopsis thaliana
transcript AT5G61930.2
intron # 1
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|116397191|gb|EG439783.1|EG439783
EST:     CTCTCTGGCCTCTCTAAAATCATTCATCATGTTCCTGTTCATCGTTGCAG                         ATTGTGCGCTGAGGTTCATATTGGCAAGCAAGGTCATGAAATCAGGACTTG
genomic: CTCTCTGGCCTCTCTAAAATCATTCATCATGTTCCTGTTCATCGTTGCAGgttactttca ... ttgtttgcagATTGTGCGCTGAGGTTCATATTGGCAAGCAAGGTCATGAAATCAGGACTTG
EST: gi|116396282|gb|EG438874.1|EG438874
EST:     CTCTCTGGCCTCTCTAAAATCATTCATCATGTTCCTGTTCATCGTTGCAG                         ATTGTGCGCTGAGGTTCATATTGGCAAGCAAGGTCATGAAATCAGGACTTG
genomic: CTCTCTGGCCTCTCTAAAATCATTCATCATGTTCCTGTTCATCGTTGCAGgttactttca ... ttgtttgcagATTGTGCGCTGAGGTTCATATTGGCAAGCAAGGTCATGAAATCAGGACTTG
EST: gi|116396284|gb|EG438876.1|EG438876
EST:     CTCTCTGACCTCTCTAAAATCATTCATCATGTTCCTGTTCATCGTTGCAG                         ATTGTGCGCTGAGGTTCATATTGGCAGGCAAGGTCATGAAATCAGGACTTG
genomic: CTCTCTGGCCTCTCTAAAATCATTCATCATGTTCCTGTTCATCGTTGCAGgttactttca ... ttgtttgcagATTGTGCGCTGAGGTTCATATTGGCAAGCAAGGTCATGAAATCAGGACTTG
EST: gi|116397194|gb|EG439786.1|EG439786
EST:     CTCTCTGGCCTCTCTAAAATCATTCATCATGTTCCTGTTCATCGTTGCAG                         ATTGTGCGCTGAGGTTCATATTGGCAAGCAAGGTCATGAAATCAGGACTTG
genomic: CTCTCTGGCCTCTCTAAAATCATTCATCATGTTCCTGTTCATCGTTGCAGgttactttca ... ttgtttgcagATTGTGCGCTGAGGTTCATATTGGCAAGCAAGGTCATGAAATCAGGACTTG
EST: gi|116396261|gb|EG438853.1|EG438853
EST:     CTCTCTGGCCTCTCTAAAATCATTCATCATGTTCCTGTTCATCGTTGCAG                         ATTGTGCGCTGAGGTTCATATTGGCAAGCAAGGTCATGAAATCAGGACTTG
genomic: CTCTCTGGCCTCTCTAAAATCATTCATCATGTTCCTGTTCATCGTTGCAGgttactttca ... ttgtttgcagATTGTGCGCTGAGGTTCATATTGGCAAGCAAGGTCATGAAATCAGGACTTG
EST: gi|86058794|gb|DR354551.1|DR354551
EST:     CTCTCTGGCCTCTCTAAAATCATTCATCATGTTCCTGTTCATCGTTGCAG                         ATTGTGCGCTGAGGTTCATATTGGCAAGCAAGGTCATGAAATCAGGACTTG
genomic: CTCTCTGGCCTCTCTAAAATCATTCATCATGTTCCTGTTCATCGTTGCAGgttactttca ... ttgtttgcagATTGTGCGCTGAGGTTCATATTGGCAAGCAAGGTCATGAAATCAGGACTTG
EST: gi|116396285|gb|EG438877.1|EG438877
EST:     CTCTCTGGCCTCTCTAAAATCATTCATCATGTTCCTGTTCATCGTTGCAG                         ATTGTGCGCTGAGGTTCATATTGGCAAGCAAGGTCATGAAATCAGGACTTG
genomic: CTCTCTGGCCTCTCTAAAATCATTCATCATGTTCCTGTTCATCGTTGCAGgttactttca ... ttgtttgcagATTGTGCGCTGAGGTTCATATTGGCAAGCAAGGTCATGAAATCAGGACTTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGGAACTTGTCGACGTGGCTCACTGTGTTCACCGATGCCGTAACATGTTGCTCTCTGGCCTCTCTAAAATCATTCATCATGTTCCTGTTCATCGTTGCAGgttactttcactctgtctcatctctgtgtttgatttgctgatacttcctattgcttgtttaagcgttttatataatctatacaaccagaatttgatcctt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttcactc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcatctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaccagaa