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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacactgcttcttctttgatattcgcgattcatcgaacgatttcatcattatagacaaacatcctatcgatcgggtttgtttttgctgattcgagattcactgtttgttagtttcatttcgttattttgcttcatgtggtgttgattgattattcgattttcttttttggcagTTTGGATTTGTGTGAGTCTGCATAATCATGGCGAGGAAGATGCTTGTTGATGGTGAGATTGATAAGGTGGCGGCTGATGAAGCCAACGCGACGCACTATG

Basic information

species Arabidopsis thaliana
transcript AT3G24170.1
intron # 1
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|116480237|gb|EG522829.1|EG522829
EST:     CTCTTCTCTTGATCTTTTAGTGTTCTTGCTTTGTCGCTTCAACGCTTAAG                         TTTGGATTTGTGTGAGTCTGCATAATCATGGCGAGGAAGATGCTTGTTGAT
genomic: CTCTTCTCTTGATCTTTTAGTGTTCTTGCTTTGTCGCTTCAACGCTTAAGgtaacactgc ... tttttggcagTTTGGATTTGTGTGAGTCTGCATAATCATGGCGAGGAAGATGCTTGTTGAT
EST: gi|116428975|gb|EG471567.1|EG471567
EST:     CTCTTCTCTTGATCTTTTAGTGTTCTTGCTTTGTCGCTTCAACGCTTAAG                         TTTGGATTTGTGTGAGTCTGCATAATCATGGCGAGGAAGATGCTTGTTGAT
genomic: CTCTTCTCTTGATCTTTTAGTGTTCTTGCTTTGTCGCTTCAACGCTTAAGgtaacactgc ... tttttggcagTTTGGATTTGTGTGAGTCTGCATAATCATGGCGAGGAAGATGCTTGTTGAT
EST: gi|125187823|gb|EL202777.1|EL202777
EST:     GATCTTTTAGTGTTCTTGCTTTGTCGCTTCAACGCTTAAG                         TTTGGATTTGTGTGAGTCTGCATAATCATGG
genomic: GATCTTTTAGTGTTCTTGCTTTGTCGCTTCAACGCTTAAGgtaacactgc ... tttttggcagTTTGGATTTGTGTGAGTCTGCATAATCATGG
EST: gi|116462895|gb|EG505487.1|EG505487
EST:     CTCTTCTCTTGATCTTTTGGTGTTCTTGCTTTGTCGCTTCAACGCTTAAG                         TTTGGATTTGTGTGGGTCTGCATAATCATGGCGAGGAAGATGCTTGTTGAT
genomic: CTCTTCTCTTGATCTTTTAGTGTTCTTGCTTTGTCGCTTCAACGCTTAAGgtaacactgc ... tttttggcagTTTGGATTTGTGTGAGTCTGCATAATCATGGCGAGGAAGATGCTTGTTGAT
EST: gi|116422003|gb|EG464595.1|EG464595
EST:     CTCTTCTCTTGATCTTTTAGTGTTCTTGCTTTGTCGCTTCAACGCTTAAG                         TTTGGATTTGTGTGAGTCTGCATAATCATGGCGAGGAAGATGCTTGTTGAT
genomic: CTCTTCTCTTGATCTTTTAGTGTTCTTGCTTTGTCGCTTCAACGCTTAAGgtaacactgc ... tttttggcagTTTGGATTTGTGTGAGTCTGCATAATCATGGCGAGGAAGATGCTTGTTGAT
EST: gi|116454473|gb|EG497065.1|EG497065
EST:     CTCTTCTCTTGATCTTTTAGTGTTCTTGCTTTGTCGCTTCAACGCTTAAG                         TTTGGATTTGTGTGAGTCTGCATAATCATGGCGAGGAAGATGCTTGTTGAT
genomic: CTCTTCTCTTGATCTTTTAGTGTTCTTGCTTTGTCGCTTCAACGCTTAAGgtaacactgc ... tttttggcagTTTGGATTTGTGTGAGTCTGCATAATCATGGCGAGGAAGATGCTTGTTGAT
EST: gi|124923417|gb|EL001613.1|EL001613
EST:     GATCTTTTAGTGTTCTTGCTTTGTCGCTTCAACGCTTAAG                         TTTGGATTTGTGTGAGTCTGCATAATCATGGCG
genomic: GATCTTTTAGTGTTCTTGCTTTGTCGCTTCAACGCTTAAGgtaacactgc ... tttttggcagTTTGGATTTGTGTGAGTCTGCATAATCATGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgttattttgcttcatgtggtgttgattgattattcgattttcttttttggcagTTTGGATTTGTGTGAGTCTGCATAATCATGGCGAGGAAGATGCTTGTTGATGGTGAGATTGATAAGGTGGCGGCTGATGAAGCCAACGCGACGCACTATG
                         gattgat  putative branch site (score: 4)
                                  ttcgattttctttttt  putative PPT
                                      attttctttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacactgcttcttctttgatattcgcgattcatcgaacgatttcatcattatagacaaacatcctatcgatcgggtttgtttttgctgattcgagattcactgtttgttagtttcatttcgttattttgcttcatgtggtgttgattgattattcgattttcttttttggcagTTTGGATTTGTGTGAGTCTGCATAATCATGGCGAGGAAGATGCTTGTTGATGGTGAGATTGATAAGGTGGCGGCTGATGAAGCCAACGCGACGCACTATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC