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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCACAGGTTCTCGTATGGTGAGCCAATGACTGTAGAATCTACAACACAAGCTTTGTGTGATCTTGCTTTACGGTTTGGTGAAGGAGAGGAAGAGTCAATGgtagtaatcgctctattacctttatagcataggaagagtcaatggtagtaatcgctctattacctttatagcataggcaatgtttagtggatttctcttc...

Basic information

species Arabidopsis thaliana
transcript AT3G14290.1
intron # 6
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|164010943|gb|EL992927.1|EL992927
EST:     CTTTGTGTGATCTTGCTTTACGGTTTGGTGAAGGAGAGGAAGAGTCAATG                         TCTCGTCCATTTGGAGTATCCCCTTCTCATTGC
genomic: CTTTGTGTGATCTTGCTTTACGGTTTGGTGAAGGAGAGGAAGAGTCAATGgtagtaatcg ... ctttttgcagTCTCGTCCATTTGGAGTATCCC-TTCTCATTGC
EST: gi|164115904|gb|ES036767.1|ES036767
EST:     AAGGAGAGGAAGAGTCAATG                         TCTCGTCCATTTGGAGTATCCCTTCTCATTGCTGGGCATGATGAAAATGGA
genomic: AAGGAGAGGAAGAGTCAATGgtagtaatcg ... ctttttgcagTCTCGTCCATTTGGAGTATCCCTTCTCATTGCTGGGCATGATGAAAATGGA
EST: gi|124823154|gb|EH908020.1|EH908020
EST:     TGTGATCTTGCTTTACGGTTTGGTGAAGGAGAGGAAGAGTCAATG                         TCTCGTCCATTTGGAGTATCCCTTCTCNTTGCTGGGCATGATGAAAATGGA
genomic: TGTGATCTTGCTTTACGGTTTGGTGAAGGAGAGGAAGAGTCAATGgtagtaatcg ... ctttttgcagTCTCGTCCATTTGGAGTATCCCTTCTCATTGCTGGGCATGATGAAAATGGA
EST: gi|164214274|gb|ES051976.1|ES051976
EST:     GGTGAAGGAGAGGAAGAGTCAATG                         TCTCGTCCATTTGGAGTATCCCTTCTCATTGCTGGGCATGATGTAAATGGA
genomic: GGTGAAGGAGAGGAAGAGTCAATGgtagtaatcg ... ctttttgcagTCTCGTCCATTTGGAGTATCCCTTCTCATTGCTGGGCATGATGAAAATGGA
EST: gi|164112514|gb|ES061010.1|ES061010
EST:     CTTTGTGTGATCTTGCTTTACGGTTTGGTGAAGGAGAGGAAGAGTCAATG                         TCTCGTCCATTTGGAGTATCCCTTC
genomic: CTTTGTGTGATCTTGCTTTACGGTTTGGTGAAGGAGAGGAAGAGTCAATGgtagtaatcg ... ctttttgcagTCTCGTCCATTTGGAGTATCCCTTC
EST: gi|125140115|gb|EL178532.1|EL178532
EST:     CTTTGTGTGATCTTGCTTTACGGTTTGGTGAAGGAGAGGAAGAGTCAATG                         TCTCGTCCATTTGGAGTATCCCTTCTCATTGCTGGGCA
genomic: CTTTGTGTGATCTTGCTTTACGGTTTGGTGAAGGAGAGGAAGAGTCAATGgtagtaatcg ... ctttttgcagTCTCGTCCATTTGGAGTATCCCTTCTCATTGCTGGGCA
EST: gi|163980855|gb|ES088381.1|ES088381
EST:     CTTTGTGTGATCTTGCTTTACGGTTTGGTGA-GGAGAGGAAGAGTCAATG                         TCTCGTCCATTTGGAGTATCC
genomic: CTTTGTGTGATCTTGCTTTACGGTTTGGTGAAGGAGAGGAAGAGTCAATGgtagtaatcg ... ctttttgcagTCTCGTCCATTTGGAGTATCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCACAGGTTCTCGTATGGTGAGCCAATGACTGTAGAATCTACAACACAAGCTTTGTGTGATCTTGCTTTACGGTTTGGTGAAGGAGAGGAAGAGTCAATGgtagtaatcgctctattacctttatagcataggaagagtcaatggtagtaatcgctctattacctttatagcataggcaatgtttagtggatttctcttc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cgctctat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aggaagag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttctctt