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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactttattagttacatttttcgaaatttataacatgatatattgtttggaaaatgaacttatattcatgtttttttcttttgtctaaatagGTGTTACTTCGATAACAATGGATGACAAAACCGGGAAAATGACAGTAGTTGGTGAAGTTGATGTACCGGTTATCGTGATGAAGCTAAGGAAGCTATGTAA

Basic information

species Arabidopsis thaliana
transcript AT5G52750.1
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|125324470|gb|EL338550.1|EL338550
EST:     GTTTGTCACCGTTTCTCGATGTCCAG                         GTGTTACTTCGATAACAATGGATGACAAAACCGGGAAAATGACAGTAGTTG
genomic: GTTTGTCACCGTTTCTCGATGTCCAGgtaactttat ... gtctaaatagGTGTTACTTCGATAACAATGGATGACAAAACCGGGAAAATGACAGTAGTTG
EST: gi|86077306|gb|DR373063.1|DR373063
EST:     CGAGGAAAGAATCAGGAAGAAAGCGTTTGTCACCGTTTCTCGATGTCCAG                         GTGTTACTTCGATAACAATGGATGACAAAACCGGGAAAATGACGGTAGTTG
genomic: CGAGGAAAGAATCAGGAAGAAAGCGTTTGTCACCGTTTCTCGATGTCCAGgtaactttat ... gtctaaatagGTGTTACTTCGATAACAATGGATGACAAAACCGGGAAAATGACAGTAGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatattgtttggaaaatgaacttatattcatgtttttttcttttgtctaaatagGTGTTACTTCGATAACAATGGATGACAAAACCGGGAAAATGACAGTAGTTGGTGAAGTTGATGTACCGGTTATCGTGATGAAGCTAAGGAAGCTATGTAA
                           ttcatgtttttttctt  CT-rich tract
             aaaatgaacttatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaactttattagttacatttttcgaaatttataacatgatatattgtttggaaaatgaacttatattcatgtttttttcttttgtctaaatagGTGTTACTTCGATAACAATGGATGACAAAACCGGGAAAATGACAGTAGTTGGTGAAGTTGATGTACCGGTTATCGTGATGAAGCTAAGGAAGCTATGTAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA