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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgagaaacaaccttgttaccataatatttcatatattcatgattgaaaataaatccgagtgtttgtgtggaatggcgaggacagGTCGCATTGAAAGTGCCAGTGGTGGTTCGTCTAGAAGGAACGAATGTTGAGCAGGGAAAGAGAATCCTCAAGGAAAGTGGAATGAAACTCATAACAGCTG

Basic information

species Arabidopsis thaliana
transcript AT2G20420.1
intron # 10
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|125218227|gb|EL232310.1|EL232310
EST:     TGGAATCGTGAACGCTGCAAAAGAG                         GTCGCATTGAAAGTGCCAGTGGTGGTTCGTCTAGAAGGAACGAATGTTGAG
genomic: TGGAATCGTGAACGCTGCAAAAGAGgtgagtgaga ... gcgaggacagGTCGCATTGAAAGTGCCAGTGGTGGTTCGTCTAGAAGGAACGAATGTTGAG
EST: gi|164191475|gb|ES024420.1|ES024420
EST:     TAATGAAATGTGATGTGATTGCTAGTGGAATCGTGAACGCTGCAAAAGAG                         GTCGCATTGAAAGTGCCAGTGGTG
genomic: TAATGAAATGTGATGTGATTGCTAGTGGAATCGTGAACGCTGCAAAAGAGgtgagtgaga ... gcgaggacagGTCGCATTGAAAGTGCCAGTGGTG
EST: gi|164064629|gb|ES089931.1|ES089931
EST:     TAATGAAATGTGATGTGATTGCTAGTGGAATCGTGAACGCTGCAAAAGAG                         GTCGCATTGAAAGTGCCAGTGGTGGTTCGT
genomic: TAATGAAATGTGATGTGATTGCTAGTGGAATCGTGAACGCTGCAAAAGAGgtgagtgaga ... gcgaggacagGTCGCATTGAAAGTGCCAGTGGTGGTTCGT
EST: gi|86080088|gb|DR375845.1|DR375845
EST:     TAATGAAATGTGATGTGATTGCTAGTGGAATCGTGAACGCTGCAAAAGAG                         GTCGCATTGAAAGTGCCAGTGGTGGTTAGTCTAGAAGGAACGAATGTTGAG
genomic: TAATGAAATGTGATGTGATTGCTAGTGGAATCGTGAACGCTGCAAAAGAGgtgagtgaga ... gcgaggacagGTCGCATTGAAAGTGCCAGTGGTGGTTCGTCTAGAAGGAACGAATGTTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catatattcatgattgaaaataaatccgagtgtttgtgtggaatggcgaggacagGTCGCATTGAAAGTGCCAGTGGTGGTTCGTCTAGAAGGAACGAATGTTGAGCAGGGAAAGAGAATCCTCAAGGAAAGTGGAATGAAACTCATAACAGCTG
         atgattgaaaataaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtgagaaacaaccttgttaccataatatttcatatattcatgattgaaaataaatccgagtgtttgtgtggaatggcgaggacagGTCGCATTGAAAGTGCCAGTGGTGGTTCGTCTAGAAGGAACGAATGTTGAGCAGGGAAAGAGAATCCTCAAGGAAAGTGGAATGAAACTCATAACAGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG