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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCCAATCAGgtaacttatccatgatcaggaatgcgctattgaatatgttcaaaagatttcttggtactcatgaacatctgtgagaataatgggttttaaagaaaaagagtttgtttcggttggtgcag

Basic information

species Arabidopsis thaliana
transcript AT3G10920.1
intron # 4
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|124900068|gb|EH974686.1|EH974686
EST:     GACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCCAATCAG                         GATCCATTAGTGACAAAAGGAGGAAGCTTGG
genomic: GACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCCAATCAGgtaacttatc ... gttggtgcagGATCCATTAGTGACAAAAGGAGGAAGCTTGG
EST: gi|164015850|gb|ES155021.1|ES155021
EST:     GTTGTTGACACAACTGCCAATCAG                         GATCCATTAGTGACAAAAGGAGGAAGCTTGGTACCTCTGGTGGGTATAGAT
genomic: GTTGTTGACACAACTGCCAATCAGgtaacttatc ... gttggtgcagGATCCATTAGTGACAAAAGGAGGAAGCTTGGTACCTCTGGTGGGTATAGAT
EST: gi|125021953|gb|EL094222.1|EL094222
EST:     TTGTTGACACAACTGCCAATCAG                         GATCCATTAGTGACAAAAGGAGGAAGCTTGGTACCTCTGGTGGGTATGGAT
genomic: TTGTTGACACAACTGCCAATCAGgtaacttatc ... gttggtgcagGATCCATTAGTGACAAAAGGAGGAAGCTTGGTACCTCTGGTGGGTATAGAT
EST: gi|124980171|gb|EL053144.1|EL053144
EST:     GAAGCTAGTTGTTGACACAACTGCCAATTCAG                         GATCCATTAGTGACAAAAGGAGGAAGCTTGGTACCTCTGGTGGGTATAGA
genomic: GAAGCTAGTTGTTGACACAACTGCCAA-TCAGgtaacttatc ... gttggtgcagGATCCATTAGTGACAAAAGGAGGAAGCTTGGTACCTCTGGTGGGTATAGA
EST: gi|116426619|gb|EG469211.1|EG469211
EST:     GACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCCAATCAG                         GATCCATTAGTGACAAAAGGAGGAAGCTTGGTACCTCTGGTGGGTATAGAT
genomic: GACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCCAATCAGgtaacttatc ... gttggtgcagGATCCATTAGTGACAAAAGGAGGAAGCTTGGTACCTCTGGTGGGTATAGAT
EST: gi|47828007|gb|CK117691.1|CK117691
EST:     GACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCCAATCAG                         GATCCATTAGTGACAAAAGGAGGAAGCTTGGTACCTCTGGTGGGTATAGAT
genomic: GACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCCAATCAGgtaacttatc ... gttggtgcagGATCCATTAGTGACAAAAGGAGGAAGCTTGGTACCTCTGGTGGGTATAGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGCTCGGACTAGACAAAGAACTGAAGAAGCTAGTTGTTGACACAACTGCCAATCAGgtaacttatccatgatcaggaatgcgctattgaatatgttcaaaagatttcttggtactcatgaacatctgtgagaataatgggttttaaagaaaaagagtttgtttcggttggtgcag

- - - - - - -  AAAGAA
- - - - - - - - AAGAAC
- - - - - - - - - -  CTGAAG
- - - - - - - - - - - TGAAGA
- - - - - - - - - - - - AAGAAG
- - - - - - - - - - - -  AGAAGC