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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccagaaacttgcatgttgttaaaggtctcgttttgtttggttgttctttgttcagattgtttttttttgttcacgccatggcttgtaatcgtctgtgcagATGGCTGCTTCATCGGCTTGTCTTCTCGGAAATGGATTATCTGTCTACACAACCAAACAGAGGTTCCAAAAGCTTGGGCTTGATAGGACATCTAAAGTTA

Basic information

species Arabidopsis thaliana
transcript AT1G06430.1
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|125066343|gb|EL133251.1|EL133251
EST:     AAACAAACAATCTCTTTCTCTTCTTCTGCCAAATTCCACAG                         ATGGCTGCTTCATCGGCTTGTCTTCTCGG
genomic: AAACAAACAATCTCTTTCTCTTCTTCTGCCAAATTCCACAGgtgcgtttca ... gtctgtgcagATGGCTGCTTCATCGGCTTGTCTTCTCGG
EST: gi|86070338|gb|DR366095.1|DR366095
EST:     TCTTTCTCTTCTTCTGCCAAATTCCACAG                         ATGGCTGCTTCATCGGCTTGTCTTCTCGGAAATGGATTATCTGTCTACACA
genomic: TCTTTCTCTTCTTCTGCCAAATTCCACAGgtgcgtttca ... gtctgtgcagATGGCTGCTTCATCGGCTTGTCTTCTCGGAAATGGATTATCTGTCTACACA
EST: gi|86070339|gb|DR366096.1|DR366096
EST:     TCTTTCTCTTCTTCTGCCAAATTCCACAG                         ATGGCTGCTTCATCGGCTTGTCTTCTCGGAAATGGATTATCTGTCTACACA
genomic: TCTTTCTCTTCTTCTGCCAAATTCCACAGgtgcgtttca ... gtctgtgcagATGGCTGCTTCATCGGCTTGTCTTCTCGGAAATGGATTATCTGTCTACACA
EST: gi|116468672|gb|EG511264.1|EG511264
EST:     AAACAAACAATCTCTTTCTCTTCTTCTGCCAAATTCCACAG                         ATGGCTGCTTCATCGGCTTGTCTTCTCGGAAATGGATTATCTGTCTACACA
genomic: AAACAAACAATCTCTTTCTCTTCTTCTGCCAAATTCCACAGgtgcgtttca ... gtctgtgcagATGGCTGCTTCATCGGCTTGTCTTCTCGGAAATGGATTATCTGTCTACACA
EST: gi|86070340|gb|DR366097.1|DR366097
EST:     TCTTTCTCTTCTTCTGCCAAATTCCACAG                         ATGGCTGCTTCATCGGCTTGTCTTCTCGGAAATGGATTATCTGTCTACACA
genomic: TCTTTCTCTTCTTCTGCCAAATTCCACAGgtgcgtttca ... gtctgtgcagATGGCTGCTTCATCGGCTTGTCTTCTCGGAAATGGATTATCTGTCTACACA
EST: gi|116468583|gb|EG511175.1|EG511175
EST:     AAACAAACAATCTCTTTCTCTTCTTCTGCCAAATTCCACAG                         ATGGCTGCTTCATCGGCTTGTCTTCTCGGAAATGGATTATCTGTCTACACA
genomic: AAACAAACAATCTCTTTCTCTTCTTCTGCCAAATTCCACAGgtgcgtttca ... gtctgtgcagATGGCTGCTTCATCGGCTTGTCTTCTCGGAAATGGATTATCTGTCTACACA
EST: gi|86070341|gb|DR366098.1|DR366098
EST:     TCTTTCTCTTCTTCTGCCAAATTCCACAG                         ATGGCTGCTTCATCGGCTTGTCTTCTCGGAAATGGATTATCTGTCTACACA
genomic: TCTTTCTCTTCTTCTGCCAAATTCCACAGgtgcgtttca ... gtctgtgcagATGGCTGCTTCATCGGCTTGTCTTCTCGGAAATGGATTATCTGTCTACACA
EST: gi|125283414|gb|EL297499.1|EL297499
EST:     AAACAAACAATCTCTTTCTCTTCTTCTGCCAAATTCCACAG                         ATGGCTGCTTCATCGGCTTGTCTTCTCGGAAA
genomic: AAACAAACAATCTCTTTCTCTTCTTCTGCCAAATTCCACAGgtgcgtttca ... gtctgtgcagATGGCTGCTTCATCGGCTTGTCTTCTCGGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttgttcagattgtttttttttgttcacgccatggcttgtaatcgtctgtgcagATGGCTGCTTCATCGGCTTGTCTTCTCGGAAATGGATTATCTGTCTACACAACCAAACAGAGGTTCCAAAAGCTTGGGCTTGATAGGACATCTAAAGTTA
          attgtttttttttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccagaaacttgcatgttgttaaaggtctcgttttgtttggttgttctttgttcagattgtttttttttgttcacgccatggcttgtaatcgtctgtgcagATGGCTGCTTCATCGGCTTGTCTTCTCGGAAATGGATTATCTGTCTACACAACCAAACAGAGGTTCCAAAAGCTTGGGCTTGATAGGACATCTAAAGTTA

-cagaaac
- - - - - - - - - - - - - - - - -tgtttgg