Skip to another splice site:
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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtttcaaattttctcactttttgttgataaattactttgactctagctctagttaaccaaatttgggaattttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCG

Basic information

species Arabidopsis thaliana
transcript AT4G12890.1
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|164192310|gb|ES116446.1|ES116446
EST:     CCATTCGGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAG                         CATGGTGAAGAGGAATGCAAACTAAACGCTCTCGAAGCTTGCGGTATAAG
genomic: CCATTCGGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAAGCTTGCGGTATAAG
EST: gi|164212683|gb|ES034196.1|ES034196
EST:     TTCCATTCGGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAG                         CATGGTGAAGAGGAATGCAAACT
genomic: TTCCATTCGGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACT
EST: gi|164205253|gb|ES087364.1|ES087364
EST:     TCATATCTCCAATAATCTGACTATTACTTGCCAAG                         CATGGTGAAGAGGAATGCAAACTAAACGCTCTCGAAGCTTGCGGTATAAG
genomic: TCATATCTCCAATAATCTGACTATTACTTGCC-AGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAAGCTTGCGGTATAAG
EST: gi|164074163|gb|ES046631.1|ES046631
EST:     TCTGACTATTACTTGCCAG                         CATGGTGAAGAGGAATGCAAACTAAACGCTCTCGAAGCTTGCGGTATAAGA
genomic: TCTGACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGA
EST: gi|164120194|gb|ES178828.1|ES178828
EST:     ATCTCCAATAATCTGACTATTACTTGCCAG                         CATGGTGAAGAGGAATGCAAACTAAACGCTCTCGAA
genomic: ATCTCCAATAATCTGACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAA
EST: gi|86079855|gb|DR375612.1|DR375612
EST:     TCCATTCGGTAACGCTCAATATCTCCRATAATCTGACTATTACTTGCCAG                         CATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGA
genomic: TCCATTCGGTAACGCTC-ATATCTCCAATAATCTGACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGA
EST: gi|164026621|gb|EL993754.1|EL993754
EST:     GGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAG                         CATGGTGAAGAGGAATGCAAACTAAACG
genomic: GGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACTTAACG
EST: gi|164222386|gb|ES095565.1|ES095565
EST:     TCATATCTCCAATAATCTGACTATTACTTGCCAG                         CATGGTGAAGAGGAATGCAAACTAAACGCTCTCGAAGCTTGCGGTATAAGA
genomic: TCATATCTCCAATAATCTGACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGA
EST: gi|164194522|gb|ES069346.1|ES069346
EST:     TTCCATTCGGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAG                         CATGGTGAAGAGGAATGCAAACTAAACGCTCTCGAA
genomic: TTCCATTCGGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAA
EST: gi|163986202|gb|EL991987.1|EL991987
EST:     ACTATTACTTGCCAG                         CATGGTGAAGAGGAATGCAAACTAAACGCTCTCGAAGCTTGCGGTATAAGA
genomic: ACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGA
EST: gi|164012102|gb|ES075461.1|ES075461
EST:     TGACTATTACTTGCCAG                         CATGGTGAAGAGGAATGCAAACTAAACGCTCTCGAAGCTTGCGGTATAAGA
genomic: TGACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGA
EST: gi|164059590|gb|ES051241.1|ES051241
EST:     CGGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAG                         CATGGTGAAGAGGAATGCAAACTAAACGCTCTCGAAGCTTGCGGTATAAGA
genomic: CGGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGA
EST: gi|164068514|gb|ES199845.1|ES199845
EST:     TTCCATTCGGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAG                         CATGGTGAAGAGGAATGCAAACTAAACGCTC
genomic: TTCCATTCGGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTC
EST: gi|164235825|gb|ES034320.1|ES034320
EST:     CCAATAATCTGACTATTACTTGCCAG                         CATGGTGAAGAGGAATGCAAACTAAACGCTCTCGAAGCTTGCGGTATAAGA
genomic: CCAATAATCTGACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGA
EST: gi|164024422|gb|ES151079.1|ES151079
EST:     TTCCATTCGGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAG                         CATGGTGAAGAGGAATGC
genomic: TTCCATTCGGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGC
EST: gi|164222287|gb|ES190120.1|ES190120
EST:     CTCATATCTCCAATAATCTGACTATTACTTGCCAG                         CATGGTGAAGAGGAATGCAAACTAAACGCTCTCGAAGCTTGCGGTATAAGA
genomic: CTCATATCTCCAATAATCTGACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGA
EST: gi|164205127|gb|ES081218.1|ES081218
EST:     TTCCATTCGGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAG                         CATGGTGAAGAGGAATGCAAACTAAACGCTC
genomic: TTCCATTCGGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTC
EST: gi|164144376|gb|ES106011.1|ES106011
EST:     TTCCATTCGGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAG                         CATGGTGAAGAGGAATGCAAACTAAACGCT
genomic: TTCCATTCGGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCT
EST: gi|164231308|gb|ES158780.1|ES158780
EST:     TTCCATTCGGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAG                         CATGGTGAAGAGGAATGCAAACTAAACGCTCTCGA
genomic: TTCCATTCGGTAACGCTCATATCTCCAATAATCTGACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTCTCGA
EST: gi|164083856|gb|ES148111.1|ES148111
EST:     CGCTCATATCTCCAATAATCTGACTATTACTTGCCAG                         CATGGTGAAGAGGAATGCAAACTAAACGCTCTCGAAGCTTGCGGTATAAGA
genomic: CGCTCATATCTCCAATAATCTGACTATTACTTGCCAGgttagtttca ... ttttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgataaattactttgactctagctctagttaaccaaatttgggaattttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCG
                          agttaac  putative branch site (score: 3)
     aattacttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtttcaaattttctcactttttgttgataaattactttgactctagctctagttaaccaaatttgggaattttgtgaagCATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC