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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCAAGAATGCACATTTACGTAAGGAGAGGTGGACCAAATTACCAGACTGGTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAGgtaaccgaattacttatggttttactcacaatctaaacctaggagaaatggtgaaaactcattctgtcgaaaaatttctcagaaaagaacatgtgtggttagttcgaatactgaactttacaaggattgatgattgcag

Basic information

species Arabidopsis thaliana
transcript AT1G09430.1
intron # 11
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|86087110|gb|DR382869.1|DR382869
EST:     GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAG                         GTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC
genomic: GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAGgtaaccgaat ... atgattgcagGTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC
EST: gi|125258875|gb|EL272960.1|EL272960
EST:     GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAG                         GTATATGGTCCAGAGG
genomic: GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAGgtaaccgaat ... atgattgcagGTATATGGTCCAGAGG
EST: gi|116442520|gb|EG485112.1|EG485112
EST:     GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGCCCCTCTAGAG                         GTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC
genomic: GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAGgtaaccgaat ... atgattgcagGTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC
EST: gi|125065456|gb|EL132680.1|EL132680
EST:     GAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAG                         GTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC
genomic: GAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAGgtaaccgaat ... atgattgcagGTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC
EST: gi|116442521|gb|EG485113.1|EG485113
EST:     GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGCCCCTCTAGAG                         GTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC
genomic: GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAGgtaaccgaat ... atgattgcagGTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC
EST: gi|86078164|gb|DR373921.1|DR373921
EST:     GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAG                         GTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC
genomic: GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAGgtaaccgaat ... atgattgcagGTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCAAGAATGCACATTTACGTAAGGAGAGGTGGACCAAATTACCAGACTGGTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAGgtaaccgaattacttatggttttactcacaatctaaacctaggagaaatggtgaaaactcattctgtcgaaaaatttctcagaaaagaacatgtgtggttagttcgaatactgaactttacaaggattgatgattgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA