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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcgcctgcctctcttcttcatctattaattttcttgaattttgtctaacttagtgtgtgatgattgatataaatgaaccaaagGAGGATAAGCATGGCTGGTCTGAGTTCGAAGACTGTACCTCACCTTGCAGACGCTATCCATGCTGTTGTCACCAAAGCCGTCTGAGAAACTGAACACCAC

Basic information

species Arabidopsis thaliana
transcript AT5G11520.1
intron # 10
splice site 3'
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|125025976|gb|EL098245.1|EL098245
EST:     AAGTCTCCTTCATGACTTAAAGAGTACCACATCTACATGACATCTGACGG                         GAGGATAAGCATGGCTGGTCTGAGTTCGAAGA
genomic: AAGTCTCCTTCATGAC-TAAAGAGTACCACATCTACATGACATCTGACGGgtaagcgcct ... tgaaccaaagGAGGATAAGCATGGCTGGTCTGAGTTCGAAGA
EST: gi|125199781|gb|EL214735.1|EL214735
EST:     TCTACATGACATCTGACGG                         GAGGATAAGCATGGCTGGTCTGAGTTCGAAGACTGTACCTCACCTTGCAGA
genomic: TCTACATGACATCTGACGGgtaagcgcct ... tgaaccaaagGAGGATAAGCATGGCTGGTCTGAGTTCGAAGACTGTACCTCACCTTGCAGA
EST: gi|301502679|gb|HO208219.1|HO208219
EST:     CAAGTCTCCTTCATGACTAAAGAGTACCACATCTACATGACATCTGACGG                         GAGGATAAGCATGGCTGGTCTGAG
genomic: CAAGTCTCCTTCATGACTAAAGAGTACCACATCTACATGACATCTGACGGgtaagcgcct ... tgaaccaaagGAGGATAAGCATGGCTGGTCTGAG
EST: gi|124989170|gb|EL061506.1|EL061506
EST:     TGACTAAAGAGTACCACATCTACATGACATCTGACGG                         GAGGATAAGCATGGCTGGTCTGAGTTCGAAGACTGTACCTCACCTTGCAGA
genomic: TGACTAAAGAGTACCACATCTACATGACATCTGACGGgtaagcgcct ... tgaaccaaagGAGGATAAGCATGGCTGGTCTGAGTTCGAAGACTGTACCTCACCTTGCAGA
EST: gi|125192782|gb|EL207736.1|EL207736
EST:     TCCTTCATGACTAAAGAGTACCACATCTACATGACATCTGACGG                         GAGGATAAGCATGGCTGGTCTGAGTTCGAAGACTGTACCTCACCTTGCAG
genomic: TCCTTCATGACTAAAGAGTACCACATCTACATGACATCTGACGGgtaagcgcct ... tgaaccaaagGAGGATAAGCATGGCTGGTCTGAGTTCGAAGACTGTACCTCACCTTGCAG
EST: gi|86085892|gb|DR381651.1|DR381651
EST:     CAAGTCTCCTTCATGACTAAAGAGTACCACATCTACATGACATCTGACGG                         GAGGATAAGCATGGCTGGTCTGAGTTCGAAGACTGTACCTCACCTTGCAGA
genomic: CAAGTCTCCTTCATGACTAAAGAGTACCACATCTACATGACATCTGACGGgtaagcgcct ... tgaaccaaagGAGGATAAGCATGGCTGGTCTGAGTTCGAAGACTGTACCTCACCTTGCAGA
EST: gi|125208443|gb|EL223397.1|EL223397
EST:     CAAGTCTCCTTCATGACTAAAGAGTACCACATCTACATGACATCTGACGG                         GAGGATAAGCATGGCTGGT
genomic: CAAGTCTCCTTCATGACTAAAGAGTACCACATCTACATGACATCTGACGGgtaagcgcct ... tgaaccaaagGAGGATAAGCATGGCTGGT
EST: gi|125046179|gb|EL118448.1|EL118448
EST:     CAAGTCTCCTTCATGACTAAAGAGTACCACATCTACATGACATCTGACGG                         GAAGGATAAGCATGGCTGGTCTGAGTTC
genomic: CAAGTCTCCTTCATGACTAAAGAGTACCACATCTACATGACATCTGACGGgtaagcgcct ... tgaaccaaagGA-GGATAAGCATGGCTGGTCTGAGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcttgaattttgtctaacttagtgtgtgatgattgatataaatgaaccaaagGAGGATAAGCATGGCTGGTCTGAGTTCGAAGACTGTACCTCACCTTGCAGACGCTATCCATGCTGTTGTCACCAAAGCCGTCTGAGAAACTGAACACCAC
                               atgattgatataaat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcgcctgcctctcttcttcatctattaattttcttgaattttgtctaacttagtgtgtgatgattgatataaatgaaccaaagGAGGATAAGCATGGCTGGTCTGAGTTCGAAGACTGTACCTCACCTTGCAGACGCTATCCATGCTGTTGTCACCAAAGCCGTCTGAGAAACTGAACACCAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT