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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagtattatagttactctttattacctatttttagtatcagccgttggatggtaaatgttgattttgactgacatgatctgatggtggtgttgcagGATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGAGCGTACAGAGAATTCATTGTGAAGAACGAGGTCATTCTTAAGGCTGGAG

Basic information

species Arabidopsis thaliana
transcript AT1G70710.1
intron # 3
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|164115232|gb|ES061741.1|ES061741
EST:     TACTGTGATTTCAACGGTTACCAG                         GATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGA
genomic: TACTGTGATTTCAACGGTTACCAGgtaaagtatt ... ggtgttgcagGATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGA
EST: gi|86069494|gb|DR365251.1|DR365251
EST:     GTCTCTACCACGCGGTTTGTCCTTTTTACTGTGATTTCAACGGTTACCAG                         GATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGA
genomic: GTCTCTACCACGCGGTTTGTCCTTTTTACTGTGATTTCAACGGTTACCAGgtaaagtatt ... ggtgttgcagGATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGA
EST: gi|164081013|gb|ES124606.1|ES124606
EST:     GTCTCTACCACGCGGTTTGTCCTTTTTACTGTGATTTCAACGGTTACCAG                         GATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGA
genomic: GTCTCTACCACGCGGTTTGTCCTTTTTACTGTGATTTCAACGGTTACCAGgtaaagtatt ... ggtgttgcagGATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGA
EST: gi|164011966|gb|ES169539.1|ES169539
EST:     CCTTTTTACTGTGATTTCAACGGTTACCAG                         TATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGA
genomic: CCTTTTTACTGTGATTTCAACGGTTACCAGgtaaagtatt ... ggtgttgcagGATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGA
EST: gi|164011076|gb|ES196355.1|ES196355
EST:     GTCTCTACCACGCGGTTTGTCCTTTTTACTGTGATTTCAACGGTTACCAG                         GATGAGTTACTGTGGGGAGCGGC
genomic: GTCTCTACCACGCGGTTTGTCCTTTTTACTGTGATTTCAACGGTTACCAGgtaaagtatt ... ggtgttgcagGATGAGTTACTGTGGGGAGCGGC
EST: gi|164156778|gb|ES074970.1|ES074970
EST:     GTCTCTACCACGCGGTTTGTCC-TTTTACTGTGATTTCAACGGTTACCAG                         GATGAGTTACTGTGGGGAGCG
genomic: GTCTCTACCACGCGGTTTGTCCTTTTTACTGTGATTTCAACGGTTACCAGgtaaagtatt ... ggtgttgcagGATGAGTTACTGTGGGGAGCG
EST: gi|164173139|gb|ES163400.1|ES163400
EST:     GTCCTTTTTACTGTGATTTCAACGGTTACCAG                         GATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGA
genomic: GTCCTTTTTACTGTGATTTCAACGGTTACCAGgtaaagtatt ... ggtgttgcagGATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGA
EST: gi|164011343|gb|ES211854.1|ES211854
EST:     GTCTCTACCACGCGGTTTGTCCTTTTTACTGTGATTTCAACGGTTACCAG                         GATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAAGCCTCGAGGAAAC
genomic: GTCTCTACCACGCGGTTTGTCCTTTTTACTGTGATTTCAACGGTTACCAGgtaaagtatt ... ggtgttgcagGATGAGTTACTGTGGGGAGCGGCATGGCTACACAAA-GCCTCGAGGAAAC
EST: gi|164008341|gb|ES139563.1|ES139563
EST:     TGTGATTTCAACGGTTACCAG                         GATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGA
genomic: TGTGATTTCAACGGTTACCAGgtaaagtatt ... ggtgttgcagGATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGA
EST: gi|164079109|gb|EL982969.1|EL982969
EST:     GATTTCAACGGTTACCAG                         GATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGA
genomic: GATTTCAACGGTTACCAGgtaaagtatt ... ggtgttgcagGATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGA
EST: gi|164152299|gb|EL999688.1|EL999688
EST:     GTCTCTACCACGCGGTTTG-CCTTTTTACNGTGATTTCAACGGTTACCAG                         GATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCT
genomic: GTCTCTACCACGCGGTTTGTCCTTTTTACTGTGATTTCAACGGTTACCAGgtaaagtatt ... ggtgttgcagGATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCT
EST: gi|164107807|gb|EL994702.1|EL994702
EST:     CCACGCGGTTTGTCCTTTTTACTGTGATTTCAACGGTTACCAG                         GATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGA
genomic: CCACGCGGTTTGTCCTTTTTACTGTGATTTCAACGGTTACCAGgtaaagtatt ... ggtgttgcagGATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccgttggatggtaaatgttgattttgactgacatgatctgatggtggtgttgcagGATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGAGCGTACAGAGAATTCATTGTGAAGAACGAGGTCATTCTTAAGGCTGGAG
           taaatgttgatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagtattatagttactctttattacctatttttagtatcagccgttggatggtaaatgttgattttgactgacatgatctgatggtggtgttgcagGATGAGTTACTGTGGGGAGCGGCATGGCTACACAAAGCCTCGAGGAAACGAGCGTACAGAGAATTCATTGTGAAGAACGAGGTCATTCTTAAGGCTGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA