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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGAAGTAGTCTGTTTGGTTTTCGTGGCGGTCCAGCTGGAATCATGAAGGGGAAATATATTGAGCTTACTTCTGAGTTTGTGTACCCTTATAGAAACCAGgtatgagatgttctgtcttttagatttttgtcggtttattgttccggtttggtttggtttcggttttagatgtttaggttcatgaaaacatagatagaaa...

Basic information

species Arabidopsis thaliana
transcript AT4G04040.1
intron # 3
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|125085905|gb|EL145571.1|EL145571
EST:     CCTTATAGAAACCAG                         GGTGGATTTGATATGTATATGTAGTGGAAGAGACAAGATTG
genomic: CCTTATAGAAACCAGgtatgagatg ... ctctttgcagGGTGGATTTGATATG-ATATGTAGTGGAAGAGACAAGATTG
EST: gi|164066591|gb|ES199814.1|ES199814
EST:     GGAAATATATTGAGCTTACTTCTGAGTTTGTGTACCCTTATAGAAACCAG                         GGTGGATTTGATATGATATGTAGTGGA
genomic: GGAAATATATTGAGCTTACTTCTGAGTTTGTGTACCCTTATAGAAACCAGgtatgagatg ... ctctttgcagGGTGGATTTGATATGATATGTAGTGGA
EST: gi|125048790|gb|EL121059.1|EL121059
EST:     GGAAATATATTGAGCTTACTTCTGAGTTTGTGTACCCTTATAGAAACCAG                         GGTGGATTTGATATGATATGTAGTGGAAG
genomic: GGAAATATATTGAGCTTACTTCTGAGTTTGTGTACCCTTATAGAAACCAGgtatgagatg ... ctctttgcagGGTGGATTTGATATGATATGTAGTGGAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGGAAGTAGTCTGTTTGGTTTTCGTGGCGGTCCAGCTGGAATCATGAAGGGGAAATATATTGAGCTTACTTCTGAGTTTGTGTACCCTTATAGAAACCAGgtatgagatgttctgtcttttagatttttgtcggtttattgttccggtttggtttggtttcggttttagatgtttaggttcatgaaaacatagatagaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agatagaa