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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatatattcctacacgttcgttctagtacgattcaagtgaactttgtttctgtcggagtactctcaccagatccttatttttgtctttgcttcttttgatcttgtagGGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACCTCGATTCTTTCTCATTTCATAAGTTTGGAGGCAATGGATCCAGTAGACA

Basic information

species Arabidopsis thaliana
transcript AT4G20095.1
intron # 3
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|116482087|gb|EG524679.1|EG524679
EST:     ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAAT                         GGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
genomic: ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAATgtaatatatt ... gatcttgtagGGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
EST: gi|116482090|gb|EG524682.1|EG524682
EST:     ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAAT                         GGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
genomic: ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAATgtaatatatt ... gatcttgtagGGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
EST: gi|116482096|gb|EG524688.1|EG524688
EST:     ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAAT                         GGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
genomic: ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAATgtaatatatt ... gatcttgtagGGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
EST: gi|116482094|gb|EG524686.1|EG524686
EST:     ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAAT                         GGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
genomic: ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAATgtaatatatt ... gatcttgtagGGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
EST: gi|116482098|gb|EG524690.1|EG524690
EST:     ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAAT                         GGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
genomic: ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAATgtaatatatt ... gatcttgtagGGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
EST: gi|116482095|gb|EG524687.1|EG524687
EST:     ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAAT                         GGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
genomic: ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAATgtaatatatt ... gatcttgtagGGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
EST: gi|116482075|gb|EG524667.1|EG524667
EST:     ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAAT                         GGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
genomic: ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAATgtaatatatt ... gatcttgtagGGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
EST: gi|116482088|gb|EG524680.1|EG524680
EST:     ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAAT                         GGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAAAC
genomic: ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAATgtaatatatt ... gatcttgtagGGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAA-C
EST: gi|116482076|gb|EG524668.1|EG524668
EST:     ATATAATCCTCTTCGGTAGAGTTGGACTTCATCGCTACAATCTGCAAAAT                         GGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
genomic: ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAATgtaatatatt ... gatcttgtagGGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
EST: gi|116482089|gb|EG524681.1|EG524681
EST:     ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAAT                         GGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
genomic: ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAATgtaatatatt ... gatcttgtagGGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
EST: gi|116482091|gb|EG524683.1|EG524683
EST:     ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAAT                         GGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
genomic: ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAATgtaatatatt ... gatcttgtagGGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
EST: gi|116482084|gb|EG524676.1|EG524676
EST:     ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAAT                         GGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
genomic: ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAATgtaatatatt ... gatcttgtagGGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
EST: gi|116482079|gb|EG524671.1|EG524671
EST:     ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAAT                         GGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC
genomic: ATATAATCCTCTTCGGTAGAGTTGGACTTCATTGCTACAATCTGCAAAATgtaatatatt ... gatcttgtagGGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcggagtactctcaccagatccttatttttgtctttgcttcttttgatcttgtagGGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACCTCGATTCTTTCTCATTTCATAAGTTTGGAGGCAATGGATCCAGTAGACA
                   tccttatttttgtctt  CT-rich tract
                      ttatttttgtcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatatattcctacacgttcgttctagtacgattcaagtgaactttgtttctgtcggagtactctcaccagatccttatttttgtctttgcttcttttgatcttgtagGGCACAAACTTACAATTTCTGACTGTACACAATTTTGACTCATGGATAACCTCGATTCTTTCTCATTTCATAAGTTTGGAGGCAATGGATCCAGTAGACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG