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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAACTCGAAGATTTCCCTCTCATCGATCTCTCTTCCACTGATCGATCTTTTCTCATCCAACAAATCCACCAAGCTTGTGCCCGATTCGGATTTTTTCAGgtacctaattataattatatatacgtttagatcacgcatgagctttttgcttctattaaaaagatatgtgtgttttcttttgttgtatttggttaaaaag...

Basic information

species Arabidopsis thaliana
transcript AT5G24530.1
intron # 1
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|86054491|gb|DR350248.1|DR350248
EST:     TTCTCATCCAACAAATCCACCAAGCTTGTGCCCGATTCGGATTTTTTCAG                         GTCAAAAATCACGGAGTTAACAAACAAATAATAGATGAGATGGTGAGTGTT
genomic: TTCTCATCCAACAAATCCACCAAGCTTGTGCCCGATTCGGATTTTTTCAGgtacctaatt ... atcattcgagGTCATAAATCACGGAGTTAACAAACAAATAATAGATGAGATGGTGAGTGTT
EST: gi|86054493|gb|DR350250.1|DR350250
EST:     TTCTCATCCAACAAATCCACCAAGCTTGTGCCCGATTCGGATTTTTTCAG                         GTCATAAAT-ACGGAGTTAACAAACNAATAATAGATGAGATGGTCAGTGTT
genomic: TTCTCATCCAACAAATCCACCAAGCTTGTGCCCGATTCGGATTTTTTCAGgtacctaatt ... atcattcgagGTCATAAATCACGGAGTTAACAAACAAATAATAGATGAGATGGTGAGTGTT
EST: gi|116470183|gb|EG512775.1|EG512775
EST:     TTCTCATCCAACAAATCCACCAAGCTTGTGCCCGATTCGGATTTTTTCAG                         GTCATAAATCACGGAGTTAACAAACAAATAATAGATGAGATGGTGAGTGTT
genomic: TTCTCATCCAACAAATCCACCAAGCTTGTGCCCGATTCGGATTTTTTCAGgtacctaatt ... atcattcgagGTCATAAATCACGGAGTTAACAAACAAATAATAGATGAGATGGTGAGTGTT
EST: gi|116456364|gb|EG498956.1|EG498956
EST:     TTCTCATCCAACAAATCCACCAAGCTTGTGCCCGATTCGGATTTTTTCAG                         GTCATAAATCACGGAGTTAACAAACAAATAATAGATGAGATGGTGAGTGTT
genomic: TTCTCATCCAACAAATCCACCAAGCTTGTGCCCGATTCGGATTTTTTCAGgtacctaatt ... atcattcgagGTCATAAATCACGGAGTTAACAAACAAATAATAGATGAGATGGTGAGTGTT
EST: gi|86054494|gb|DR350251.1|DR350251
EST:     TTCTCATCCAACAAATCCACCAAGCTTGTGCCCGATTCGGATTTTTTCAG                         GTCATAAATCACGGAGTTAACAAACAAATAATAGATGAGATGGTCAGTGTT
genomic: TTCTCATCCAACAAATCCACCAAGCTTGTGCCCGATTCGGATTTTTTCAGgtacctaatt ... atcattcgagGTCATAAATCACGGAGTTAACAAACAAATAATAGATGAGATGGTGAGTGTT
EST: gi|86054490|gb|DR350247.1|DR350247
EST:     TTCTCATCCAACAAATCCACCAAGCTTGTGCCCGATTCGGATTTTTTCAG                         GTCATAAATCACGGAGTTAACAAACAAATAATAGATGAGATGGTCAGTGTT
genomic: TTCTCATCCAACAAATCCACCAAGCTTGTGCCCGATTCGGATTTTTTCAGgtacctaatt ... atcattcgagGTCATAAATCACGGAGTTAACAAACAAATAATAGATGAGATGGTGAGTGTT
EST: gi|116470139|gb|EG512731.1|EG512731
EST:     TTCTCATCCAACAAATCCACCAAGCTTGTGCCCGATTCGGATTTTTTCAG                         GTCATAAATCACGGAGTTAACAAACAAATAATAGATGAGATGGTGAGTGTT
genomic: TTCTCATCCAACAAATCCACCAAGCTTGTGCCCGATTCGGATTTTTTCAGgtacctaatt ... atcattcgagGTCATAAATCACGGAGTTAACAAACAAATAATAGATGAGATGGTGAGTGTT
EST: gi|86054492|gb|DR350249.1|DR350249
EST:     TTCTCATCCAACAAATCCACCAAGCTTGTGCCCGATTCGGATTTTTTCAG                         GTCATAAATCACGGAGTTAACAAACAAATAATAGATGAGATGGTCAGTGTT
genomic: TTCTCATCCAACAAATCCACCAAGCTTGTGCCCGATTCGGATTTTTTCAGgtacctaatt ... atcattcgagGTCATAAATCACGGAGTTAACAAACAAATAATAGATGAGATGGTGAGTGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCAACTCGAAGATTTCCCTCTCATCGATCTCTCTTCCACTGATCGATCTTTTCTCATCCAACAAATCCACCAAGCTTGTGCCCGATTCGGATTTTTTCAGgtacctaattataattatatatacgtttagatcacgcatgagctttttgcttctattaaaaagatatgtgtgttttcttttgttgtatttggttaaaaag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaga