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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACATCTTTGAGAAGCATCCCTGCGTATGAGAATGCACTGAAGGAGTCTTTTGAGCGTTGTTTGGATCTATACCTATGTCCAAGAGTTCGAAAGAAGAGAgtgagtacttatcatctcagtttttggtttcttctttgtttttcccgtattttttcttacattatgtttcttttctccag

Basic information

species Arabidopsis thaliana
transcript AT2G40360.1
intron # 8
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|86059866|gb|DR355623.1|DR355623
EST:     TTGAGCGTTGTTTGGATCTATACCTATGTCCAAGAGTTCGAAAGAAGAGA                         ATAAACATCGACCCTGAATCTTTGAAGCCTAAGCTACCTAGTAGGAAGGAT
genomic: TTGAGCGTTGTTTGGATCTATACCTATGTCCAAGAGTTCGAAAGAAGAGAgtgagtactt ... ttttctccagATAAACATCGACCCTGAATCTTTGAAGCCTAAGCTACCTAGTAGGAAGGAT
EST: gi|124757061|gb|EH847191.1|EH847191
EST:     TGTCCAAGAGTTCGAAAGAAGAGA                         ATAAACATCGACCCTGAATCTTTGAAGCCTAAGCTACCTAGTAGGAAGGAT
genomic: TGTCCAAGAGTTCGAAAGAAGAGAgtgagtactt ... ttttctccagATAAACATCGACCCTGAATCTTTGAAGCCTAAGCTACCTAGTAGGAAGGAT
EST: gi|125234795|gb|EL248880.1|EL248880
EST:     TTGAGCGTTGTTTGGATCTATACCTATGTCCAAGAGTTCGAAAGAAGAGA                         ATAAACATCGACCCTGAATCTTTGAAGCCTAAGCTA
genomic: TTGAGCGTTGTTTGGATCTATACCTATGTCCAAGAGTTCGAAAGAAGAGAgtgagtactt ... ttttctccagATAAACATCGACCCTGAATCTTTGAAGCCTAAGCTA
EST: gi|86059867|gb|DR355624.1|DR355624
EST:     TTGAGCGTTGTTTGGATCTATACCTATGTCCAAGAGTTCGAAAGAAGAGA                         ATAAACATCGACCCTGAATCTTTGAAGCCTAAGCTACCTAGTAGGAAGGAT
genomic: TTGAGCGTTGTTTGGATCTATACCTATGTCCAAGAGTTCGAAAGAAGAGAgtgagtactt ... ttttctccagATAAACATCGACCCTGAATCTTTGAAGCCTAAGCTACCTAGTAGGAAGGAT
EST: gi|116458873|gb|EG501465.1|EG501465
EST:     TTGAGCGTTGTTTGGATCTATACCTATGTCCAAGAGTTCGAAAGAAGAGA                         ATAAACATCGACCCTGAATCTTTGAAGCCTAAGCTACCTAGTAGGAAGGAT
genomic: TTGAGCGTTGTTTGGATCTATACCTATGTCCAAGAGTTCGAAAGAAGAGAgtgagtactt ... ttttctccagATAAACATCGACCCTGAATCTTTGAAGCCTAAGCTACCTAGTAGGAAGGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TACATCTTTGAGAAGCATCCCTGCGTATGAGAATGCACTGAAGGAGTCTTTTGAGCGTTGTTTGGATCTATACCTATGTCCAAGAGTTCGAAAGAAGAGAgtgagtacttatcatctcagtttttggtttcttctttgtttttcccgtattttttcttacattatgtttcttttctccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA