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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCTGTTTACGCGGCGAAGTATCTAGCCTCCTCCGAGAAGCTGGCTATGATTGCGTCATTTCCAAATCTAAGTGGAGAAGCTCTCATGAGATCCCTGCAGgtaataaatcaaacccaattttactcttatctttaaattcctagtattcttattttcctaattatggaaggtgatttgtgattcttttatggattagtat...

Basic information

species Arabidopsis thaliana
transcript AT4G32480.1
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|116454130|gb|EG496722.1|EG496722
EST:     TTGCGTCATTTCCAAATCTAAGTGGAGAAGCTCTCATGAGATCCCTGCAG                         GTGAGCATGAATACTTGGAGGTCGTGGACAAATCGGTTTCAAAGAAAGGCG
genomic: TTGCGTCATTTCCAAATCTAAGTGGAGAAGCTCTCATGAGATCCCTGCAGgtaataaatc ... tcaaatttagGTGAGCATGAATACTTGGAGGTCGTGGACAAATCGGTTTCAAAGAAAGGCG
EST: gi|86019811|gb|DR315557.1|DR315557
EST:     TTGCGTCATTTCCAAATCTAAGTGGAGAAGCTCTCATGAGATCCCTGCAG                         GTGAGCATGAATACTTGGAGGTCGTGGACAAATCGGTTTCAAAGAAAGGCG
genomic: TTGCGTCATTTCCAAATCTAAGTGGAGAAGCTCTCATGAGATCCCTGCAGgtaataaatc ... tcaaatttagGTGAGCATGAATACTTGGAGGTCGTGGACAAATCGGTTTCAAAGAAAGGCG
EST: gi|86078558|gb|DR374315.1|DR374315
EST:     AATCTAAGTGGAGAAGCTCTCATGAGATCCCTGCAG                         GTGAGCATGAATACTTGGAGDTCGT-GACAAAATCGGTTTCMAAGAAAGSC
genomic: AATCTAAGTGGAGAAGCTCTCATGAGATCCCTGCAGgtaataaatc ... tcaaatttagGTGAGCATGAATACTTGGAGGTCGTGGAC-AAATCGGTTTCAAAGAAAGGC
EST: gi|125145411|gb|EL180608.1|EL180608
EST:     AGAAGCTCTCATGAGATCCCTGCAG                         GTGAGCATGAATACTTGGAGGTCGTGGACAAATCGGTT-CAAAGAAAGGCG
genomic: AGAAGCTCTCATGAGATCCCTGCAGgtaataaatc ... tcaaatttagGTGAGCATGAATACTTGGAGGTCGTGGACAAATCGGTTTCAAAGAAAGGCG
EST: gi|116454143|gb|EG496735.1|EG496735
EST:     TTGCGTCATTTCCAAATCTAAGTGGAGAAGCTCTCATGAGATCCCTGCAG                         GTGAGCATGAATACTTGGAGGTCGTGGACAAATCGGTTTCAAAGAAAGGCG
genomic: TTGCGTCATTTCCAAATCTAAGTGGAGAAGCTCTCATGAGATCCCTGCAGgtaataaatc ... tcaaatttagGTGAGCATGAATACTTGGAGGTCGTGGACAAATCGGTTTCAAAGAAAGGCG
EST: gi|124940358|gb|EL016817.1|EL016817
EST:     TTTCCAAATCTAAGTGGAGAAGCTCTCATGAGATCCCTGCAG                         GTGGGCATGAATACTTGGAGGTCGTGGACAAATCGGTTTCAAAGAAAGGCG
genomic: TTTCCAAATCTAAGTGGAGAAGCTCTCATGAGATCCCTGCAGgtaataaatc ... tcaaatttagGTGAGCATGAATACTTGGAGGTCGTGGACAAATCGGTTTCAAAGAAAGGCG
EST: gi|116454144|gb|EG496736.1|EG496736
EST:     TTGCGTCATTTCCAAATCTAAGTGGAGAAGCTCTCATGAGATCCCTGCAG                         GTGAGCATGAATACTTGGAGGTCGTGGACAAATCGGTTTCAAAGAAAGGCG
genomic: TTGCGTCATTTCCAAATCTAAGTGGAGAAGCTCTCATGAGATCCCTGCAGgtaataaatc ... tcaaatttagGTGAGCATGAATACTTGGAGGTCGTGGACAAATCGGTTTCAAAGAAAGGCG
EST: gi|116454129|gb|EG496721.1|EG496721
EST:     TTGCGTCATTTCCAAATCTAAGTGGAGAAGCTCTCATGAGATCCCTGCAG                         GTGAGCATGAATACTTGGAGGTCGTGGACAAATCGGTTTCAAAGAAAGGCG
genomic: TTGCGTCATTTCCAAATCTAAGTGGAGAAGCTCTCATGAGATCCCTGCAGgtaataaatc ... tcaaatttagGTGAGCATGAATACTTGGAGGTCGTGGACAAATCGGTTTCAAAGAAAGGCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGCTGTTTACGCGGCGAAGTATCTAGCCTCCTCCGAGAAGCTGGCTATGATTGCGTCATTTCCAAATCTAAGTGGAGAAGCTCTCATGAGATCCCTGCAGgtaataaatcaaacccaattttactcttatctttaaattcctagtattcttattttcctaattatggaaggtgatttgtgattcttttatggattagtat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaatcaaa