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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtgttcttctcttattcaatatcttagtatgttgcagagttgtgtaaagataatctagaaatttggattcttgctttttagtaggatcaatgctaatgttgttattgtattcaaaatgaatagGAAGGTCCAATACTTAAGGAAGCTAGTATAAGGCCAATCTCTAGAACTGTTGTATCTGATAAAGTAGATCAGAGAAAGCCTAGTGTACTTGTAGACAAGA

Basic information

species Arabidopsis thaliana
transcript AT2G30105.1
intron # 2
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|86067166|gb|DR362923.1|DR362923
EST:     GAAGTGGAGCTAAACTCATGTTAATGGCTTCTCAAGGTCTGCATCAAGGG                         GAAGGTCCAATACTTAAGGAAGCTAGTACAAGGCCAATCTCTAGAACTGTT
genomic: GAAGTGGAGCTAAACTCATGTTAATGGCTTCTCAAGGTCTGCATCAAGGGgtcagtgttc ... aaatgaatagGAAGGTCCAATACTTAAGGAAGCTAGTATAAGGCCAATCTCTAGAACTGTT
EST: gi|86067168|gb|DR362925.1|DR362925
EST:     GAAGTGGAGCTAAACTCATGTTAATGGCTTCTCAAGGTCTGCATCAAGGG                         GAAGGTCCAATACTTAAGGAAGCTAGTACAAGGCCAATCTCTAGAACTGTT
genomic: GAAGTGGAGCTAAACTCATGTTAATGGCTTCTCAAGGTCTGCATCAAGGGgtcagtgttc ... aaatgaatagGAAGGTCCAATACTTAAGGAAGCTAGTATAAGGCCAATCTCTAGAACTGTT
EST: gi|86067167|gb|DR362924.1|DR362924
EST:     GAAGTGGAGCTAAACTCATGTTAATGGCTTCTCAAGGNCTGCATCAAGGG                         GAAGGTCCAATACTTAAGGAAGCTAGTACAAGGCCAATCTCTAGAACTGTT
genomic: GAAGTGGAGCTAAACTCATGTTAATGGCTTCTCAAGGTCTGCATCAAGGGgtcagtgttc ... aaatgaatagGAAGGTCCAATACTTAAGGAAGCTAGTATAAGGCCAATCTCTAGAACTGTT
EST: gi|124818121|gb|EH902987.1|EH902987
EST:     TGGAGCTAAACTCATGTTAATGGCTTCTCAAGGTCTGCATCAAGGG                         GAAGGTCCAATACTTAAGGAAGCTAGTATAAGGCCAATCTCTAGAACTGTT
genomic: TGGAGCTAAACTCATGTTAATGGCTTCTCAAGGTCTGCATCAAGGGgtcagtgttc ... aaatgaatagGAAGGTCCAATACTTAAGGAAGCTAGTATAAGGCCAATCTCTAGAACTGTT
EST: gi|164217617|gb|ES183953.1|ES183953
EST:     GGAGCTAAACTCATGTTAATGGCTTCTCAAGGTCTGCATCAAGGG                         GAAGGTCCAATACTTAAGGAAGCTAGTACAAGGCCAATCTCTAGAACTGTT
genomic: GGAGCTAAACTCATGTTAATGGCTTCTCAAGGTCTGCATCAAGGGgtcagtgttc ... aaatgaatagGAAGGTCCAATACTTAAGGAAGCTAGTATAAGGCCAATCTCTAGAACTGTT
EST: gi|86067171|gb|DR362928.1|DR362928
EST:     GAAGTGGAGCTAAACTCATGTTAATGGCTTCTCAAGGTCTGCATCAAGGG                         GAAGGTCCAATACTTAAGGAAGCTAGTACAAGGCCAATCTCTAGAACTGTT
genomic: GAAGTGGAGCTAAACTCATGTTAATGGCTTCTCAAGGTCTGCATCAAGGGgtcagtgttc ... aaatgaatagGAAGGTCCAATACTTAAGGAAGCTAGTATAAGGCCAATCTCTAGAACTGTT
EST: gi|86067169|gb|DR362926.1|DR362926
EST:     GAAGTGGAGCTAAACTCATGTTAATGGCTTCTCAAGGTCTGCATCAAGGG                         GAAGGTCCAATACTTAAGGAAGCTAGTACAAGGCCAATCTCTAGAACTGTT
genomic: GAAGTGGAGCTAAACTCATGTTAATGGCTTCTCAAGGTCTGCATCAAGGGgtcagtgttc ... aaatgaatagGAAGGTCCAATACTTAAGGAAGCTAGTATAAGGCCAATCTCTAGAACTGTT
EST: gi|86067170|gb|DR362927.1|DR362927
EST:     GAAGTGGAGCTAAACTCATGTTAATGGCTTCTCAAGGTCTGCATCAAGGG                         GAAGGTCCAATACTTAAGGAAGCTAGTACAAGGCCAATCTCTAGAACTGTT
genomic: GAAGTGGAGCTAAACTCATGTTAATGGCTTCTCAAGGTCTGCATCAAGGGgtcagtgttc ... aaatgaatagGAAGGTCCAATACTTAAGGAAGCTAGTATAAGGCCAATCTCTAGAACTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttgctttttagtaggatcaatgctaatgttgttattgtattcaaaatgaatagGAAGGTCCAATACTTAAGGAAGCTAGTATAAGGCCAATCTCTAGAACTGTTGTATCTGATAAAGTAGATCAGAGAAAGCCTAGTGTACTTGTAGACAAGA
                      tgctaat  putative branch site (score: 2)
                                 ttattgtattcaaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagtgttcttctcttattcaatatcttagtatgttgcagagttgtgtaaagataatctagaaatttggattcttgctttttagtaggatcaatgctaatgttgttattgtattcaaaatgaatagGAAGGTCCAATACTTAAGGAAGCTAGTATAAGGCCAATCTCTAGAACTGTTGTATCTGATAAAGTAGATCAGAGAAAGCCTAGTGTACTTGTAGACAAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA