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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcttattagattagcgttttggtatttcctgctgctttagataacgtctggtcatgtattgtccacttcagtctcttctaattgtgtgtatgaaacgcagCTCGTGTAGTGAGTGCGGAGCGGCTGAAGAAGTATATATCCCAGAAGATAAGCAACCAATGTCCTGAGGGACCTTTGTGCTTGGTTTACATGCATAGCAC

Basic information

species Arabidopsis thaliana
transcript AT3G10210.1
intron # 1
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|86061743|gb|DR357500.1|DR357500
EST:     GGATAGGTCCGGTAACCGGATTTTCCGCATCGTCGGAAAGTATTTCCCTG                         CTCGTGTAGTGAGTGCGGAGCGGCTGAAGAAGTATATATCCCAGAAGATAA
genomic: GGATAGGTCCGGTAACCGGATTTTCCGCATCGTCGGAAAGTATTTCCCTGgtaatcactc ... tgaaacgcagCTCGTGTAGTGAGTGCGGAGCGGCTGAAGAAGTATATATCCCAGAAGATAA
EST: gi|86061745|gb|DR357502.1|DR357502
EST:     GGATAGGTCCGGTAACCGGATTTTCCGCATCGTCGGAAAGTATTTCCCTG                         CTCGTGTAGTGAGTGCGGAS-GGCTGAAGAAGTATATATCCCAGAAGATAA
genomic: GGATAGGTCCGGTAACCGGATTTTCCGCATCGTCGGAAAGTATTTCCCTGgtaatcactc ... tgaaacgcagCTCGTGTAGTGAGTGCGGAGCGGCTGAAGAAGTATATATCCCAGAAGATAA
EST: gi|86061747|gb|DR357504.1|DR357504
EST:     GGATAGGTCCGGTAACCGGATTTTCCGCATCGTCGGAAAGTATTTCCCTG                         CTCGTGTAGTGAGTGCGGAS-GGCTGAAGAAGTATATATCCCAGAAGATAA
genomic: GGATAGGTCCGGTAACCGGATTTTCCGCATCGTCGGAAAGTATTTCCCTGgtaatcactc ... tgaaacgcagCTCGTGTAGTGAGTGCGGAGCGGCTGAAGAAGTATATATCCCAGAAGATAA
EST: gi|124770948|gb|EH861078.1|EH861078
EST:     CCGGATTTTCCGCATCGTCGGAAAGTATTTCCCTG                         CTCGTGTAGTGAGTGCGGAGCGGCTGAAGAAGTATATATCCCAGAAGATAA
genomic: CCGGATTTTCCGCATCGTCGGAAAGTATTTCCCTGgtaatcactc ... tgaaacgcagCTCGTGTAGTGAGTGCGGAGCGGCTGAAGAAGTATATATCCCAGAAGATAA
EST: gi|86061740|gb|DR357497.1|DR357497
EST:     GGATAGGTCCGGTAACCGGATTTTCCGCATCGTCGGAAAGTATTTCCCTG                         CTCGTGTAGTGAGTGCGGA-CGGGCTGAAGAAGTATATATCCCAGAAGATA
genomic: GGATAGGTCCGGTAACCGGATTTTCCGCATCGTCGGAAAGTATTTCCCTGgtaatcactc ... tgaaacgcagCTCGTGTAGTGAGTGCGGAGCGG-CTGAAGAAGTATATATCCCAGAAGATA
EST: gi|86061742|gb|DR357499.1|DR357499
EST:     GGATAGGTCCGGTAACCGGATTTTCCGCATCGTCGGAAAGTATTTCCCTG                         CTCGTGTAGTGAGTGCGGAGCGGCTGAAGAAGTATATATCCCAGAAGATAA
genomic: GGATAGGTCCGGTAACCGGATTTTCCGCATCGTCGGAAAGTATTTCCCTGgtaatcactc ... tgaaacgcagCTCGTGTAGTGAGTGCGGAGCGGCTGAAGAAGTATATATCCCAGAAGATAA
EST: gi|86061744|gb|DR357501.1|DR357501
EST:     GGATAGGTCCGGTAACCGGATTTTCCGCATCGTCGGAAAGTATTTCCCTG                         CTCGTGTAGTGAGTGCGGASSG-CTGAAGAAGTATATATCCCAGAAGATAA
genomic: GGATAGGTCCGGTAACCGGATTTTCCGCATCGTCGGAAAGTATTTCCCTGgtaatcactc ... tgaaacgcagCTCGTGTAGTGAGTGCGGAGCGGCTGAAGAAGTATATATCCCAGAAGATAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtctggtcatgtattgtccacttcagtctcttctaattgtgtgtatgaaacgcagCTCGTGTAGTGAGTGCGGAGCGGCTGAAGAAGTATATATCCCAGAAGATAAGCAACCAATGTCCTGAGGGACCTTTGTGCTTGGTTTACATGCATAGCAC
                              ttctaat  putative branch site (score: 2)
                              ttctaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcttattagattagcgttttggtatttcctgctgctttagataacgtctggtcatgtattgtccacttcagtctcttctaattgtgtgtatgaaacgcagCTCGTGTAGTGAGTGCGGAGCGGCTGAAGAAGTATATATCCCAGAAGATAAGCAACCAATGTCCTGAGGGACCTTTGTGCTTGGTTTACATGCATAGCAC

- - - - - - - -gttttgg
- - - - - - - - - - - - - - ctgctgc
- - - - - - - - - - - - - - - - - - - agataac