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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgaatttggctttaatgtcacagcaaatgatgatctaacttaacatagcaaagaaatgaacttgctcgttgactgtttgcttttcactctcttgtgcagAAACCTGAGACAAACAAGCCATGAGTTTATCACTCACAGTATACAGAATCCGGTCATAAGGCAAGCAGTAGTGAAAAACAATAATGCCTTTGACCTATGT

Basic information

species Arabidopsis thaliana
transcript AT5G04750.2
intron # 2
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|125103040|gb|EL157583.1|EL157583
EST:     AGAAACTCGAGCAAGATAAGCTAGATGGTGAGAAAGGAAGTGCCAACAAG                         AAACCTGAGACAAACAAGCCATGAGT
genomic: AGAAACTCGAGCAAGATAAGCTAGATGGTGAGAAAGGAAGTGCCAACAAGgtaaactttc ... tcttgtgcagAAACCTGAGACAAACAAGCCATGAGT
EST: gi|124774947|gb|EH865076.1|EH865076
EST:     AGAAACTCGAGCAAGATAAGCTAGATGGTGAGAAAGGAAGTGCCAACAAG                         AAACCTGAGACAAACAAGCCATGAGTTTA
genomic: AGAAACTCGAGCAAGATAAGCTAGATGGTGAGAAAGGAAGTGCCAACAAGgtaaactttc ... tcttgtgcagAAACCTGAGACAAACAAGCCATGAGTTTA
EST: gi|86082858|gb|DR378617.1|DR378617
EST:     AGAAACTCGAGCAAGATAAGCTAGATGGTGAGAAAGGAAGTGCCAACAAG                         AAACCTGAGACAAGCAAGCCATGAGTTTATCACTCACAGTATACAGAATCC
genomic: AGAAACTCGAGCAAGATAAGCTAGATGGTGAGAAAGGAAGTGCCAACAAGgtaaactttc ... tcttgtgcagAAACCTGAGACAAACAAGCCATGAGTTTATCACTCACAGTATACAGAATCC
EST: gi|125081225|gb|EL142530.1|EL142530
EST:     CAAGATAAGCTAGATGGTGAGAAAGGAAGTGCCAACAAG                         AAACCTGAGACAAACAAGCCATGAGTTTATCACTCACAGTATACAGAATCC
genomic: CAAGATAAGCTAGATGGTGAGAAAGGAAGTGCCAACAAGgtaaactttc ... tcttgtgcagAAACCTGAGACAAACAAGCCATGAGTTTATCACTCACAGTATACAGAATCC
EST: gi|125294721|gb|EL308806.1|EL308806
EST:     GTGAGAAAGGAAGTGCCAACAAG                         AAACCTGAGACAAACAAGCCATGAGTTTATCACTCACAGTATACAGAA
genomic: GTGAGAAAGGAAGTGCCAACAAGgtaaactttc ... tcttgtgcagAAACCTGAGACAAACAAGCCATGAGTTTATCACTCACAGTATACAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atagcaaagaaatgaacttgctcgttgactgtttgcttttcactctcttgtgcagAAACCTGAGACAAACAAGCCATGAGTTTATCACTCACAGTATACAGAATCCGGTCATAAGGCAAGCAGTAGTGAAAAACAATAATGCCTTTGACCTATGT
                      cgttgac  putative branch site (score: 4)
                            ctgtttgcttttcact  CT-rich tract
     aaagaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctgaatttggctttaatgtcacagcaaatgatgatctaacttaacatagcaaagaaatgaacttgctcgttgactgtttgcttttcactctcttgtgcagAAACCTGAGACAAACAAGCCATGAGTTTATCACTCACAGTATACAGAATCCGGTCATAAGGCAAGCAGTAGTGAAAAACAATAATGCCTTTGACCTATGT

- -aatttgg
- - - - - - - - - - -cagcaaa
- - - - - - - - - - - - - - - - - - - acttaac
- - - - - - - - - - - - - - - - - - - - - - - - -caaagaa