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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcccctaaaaatttagaaatattgcagcttacttgatgaactttgagactgacgtagggatatgtgttgtttaacagAACAAAATGCACCGGAAGGGAGCTGGAAGTGTGATAACTGTGGAAATATAAACTACCCATTCAGGAGCAAATGCAACAGGCAAAACTGTGGAGCTGATAA

Basic information

species Arabidopsis thaliana
transcript AT1G67325.2
intron # 9
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|116475626|gb|EG518218.1|EG518218
EST:     --GG-TGGAAGCTCAGATAAAATATCCA                         AACAAAATGCACCGGAAGGGAGCTGGAAGTGTGATAACTGTGGAAATATAA
genomic: CAGGGTGGAAGCTCAGATAAAATATCCAgtaagcccct ... tgtttaacagAACAAAATGCACCGGAAGGGAGCTGGAAGTGTGATAACTGTGGAAATATAA
EST: gi|125197996|gb|EL212950.1|EL212950
EST:     CAGGGTGGAAGCTCAGATAAAATATCCA                         AACAAAATGCACCGGAAGGG
genomic: CAGGGTGGAAGCTCAGATAAAATATCCAgtaagcccct ... tgtttaacagAACAAAATGCACCGGAAGGG
EST: gi|116485681|gb|EG528273.1|EG528273
EST:     CAGGGTGGAAGCTCAGATAAAATATCCA                         AACAAAATGCACCGGAAGGGAGCTGGAAGTGTGATAACTGTGGAAATATAA
genomic: CAGGGTGGAAGCTCAGATAAAATATCCAgtaagcccct ... tgtttaacagAACAAAATGCACCGGAAGGGAGCTGGAAGTGTGATAACTGTGGAAATATAA
EST: gi|116485680|gb|EG528272.1|EG528272
EST:     CAGGGTGGAAGCTCAGATAAAATATCCA                         AACAAAATGCACCGGAAGGGAGCTGGAAGTGTGATAACTGTGGAAATATAA
genomic: CAGGGTGGAAGCTCAGATAAAATATCCAgtaagcccct ... tgtttaacagAACAAAATGCACCGGAAGGGAGCTGGAAGTGTGATAACTGTGGAAATATAA
EST: gi|116475625|gb|EG518217.1|EG518217
EST:     --GG-TGGAAGCTCAGATAAAATATCCA                         AACAAAATGCACCGGA
genomic: CAGGGTGGAAGCTCAGATAAAATATCCAgtaagcccct ... tgtttaacagAACAAAATGCACCGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcagcttacttgatgaactttgagactgacgtagggatatgtgttgtttaacagAACAAAATGCACCGGAAGGGAGCTGGAAGTGTGATAACTGTGGAAATATAAACTACCCATTCAGGAGCAAATGCAACAGGCAAAACTGTGGAGCTGATAA
                        gactgac  putative branch site (score: 2)
                                            ttgtttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcccctaaaaatttagaaatattgcagcttacttgatgaactttgagactgacgtagggatatgtgttgtttaacagAACAAAATGCACCGGAAGGGAGCTGGAAGTGTGATAACTGTGGAAATATAAACTACCCATTCAGGAGCAAATGCAACAGGCAAAACTGTGGAGCTGATAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT