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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtacttatcattttctcatcttaaagctcaccaaactttattcaacgttttaagtgttttgccatctgattgtattgtttcagGAGGTTTCCTTCAACATTGGCGAATTTATCAAGAATGGAGATACTGATCAAGGATGCTAACGCAAAGGCGACTGCAAATATCAAACTTTTGAACTCG

Basic information

species Arabidopsis thaliana
transcript AT2G42130.3
intron # 3
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|116394665|gb|EG437257.1|EG437257
EST:     TGGTTTGGATCTGGAAGTCCTGGTTTACTCGCTGCTCGAGTTATATTCGA                         GAGGTTTCCTTCAACATTGGCGAATTTATCAAGAATGGAGATACTGATCAA
genomic: TGGTTTGGATCTGGAAGTCCTGGTTTACTCGCTGCTCGAGTTATATTCGAgtctgtactt ... attgtttcagGAGGTTTCCTTCAACATTGGCGAATTTATCAAGAATGGAGATACTGATCAA
EST: gi|116394673|gb|EG437265.1|EG437265
EST:     TGGTTTGGATCTGGAAGTCCTGGTTTACTCGCTGCTCGAGTTATATTCGA                         GAGGTTTCCTTCAACATTGGCGAATTTATCAAGAATGGAGATACTGATCAA
genomic: TGGTTTGGATCTGGAAGTCCTGGTTTACTCGCTGCTCGAGTTATATTCGAgtctgtactt ... attgtttcagGAGGTTTCCTTCAACATTGGCGAATTTATCAAGAATGGAGATACTGATCAA
EST: gi|19877874|gb|AU238705.1|AU238705
EST:     GTTTACTCGCTGCTCGAGTTATATTCGA                         GAGGTTTCCTTCAACATTGGCGAATTTATCAAGAATGGAGATACTGATCAA
genomic: GTTTACTCGCTGCTCGAGTTATATTCGAgtctgtactt ... attgtttcagGAGGTTTCCTTCAACATTGGCGAATTTATCAAGAATGGAGATACTGATCAA
EST: gi|116394674|gb|EG437266.1|EG437266
EST:     GTTTACTCGCTGCTCGAGTTATA-TCAGA                         GAGGTTTCCTTCAACATTGGCGAATTTATCAAGAATGGAGATACTGATCA
genomic: GTTTACTCGCTGCTCGAGTTATATTC-GAgtctgtactt ... attgtttcagGAGGTTTCCTTCAACATTGGCGAATTTATCAAGAATGGAGATACTGATCA
EST: gi|116480998|gb|EG523590.1|EG523590
EST:     TGGTTTGGATCTGGAAGTCCTGGTTTACTCGCTGCTCGAGTTATATTCGA                         GAGGTTTCCTTCAACATTGGCGAATTTATCAAGAATGGAGATACTGATCAA
genomic: TGGTTTGGATCTGGAAGTCCTGGTTTACTCGCTGCTCGAGTTATATTCGAgtctgtactt ... attgtttcagGAGGTTTCCTTCAACATTGGCGAATTTATCAAGAATGGAGATACTGATCAA
EST: gi|116480981|gb|EG523573.1|EG523573
EST:     TGGTTTGGATCTGGAAGTCCTGGTTTACTCGCTGCTCGAGTTATATTCGA                         GAGGTTTCCTTCAACATTGGCGAATTTATCAAGAATGGAGATACTGATCAA
genomic: TGGTTTGGATCTGGAAGTCCTGGTTTACTCGCTGCTCGAGTTATATTCGAgtctgtactt ... attgtttcagGAGGTTTCCTTCAACATTGGCGAATTTATCAAGAATGGAGATACTGATCAA
EST: gi|116394672|gb|EG437264.1|EG437264
EST:     T-GTTTGGATCT-GAAGTCCTGG-TTACTCGCTGCTCGAGTTATATTCGA                         GAGGTTTCCTTCACCATTGGCGAATTTATCAAGAATGGAGATACTGATCAA
genomic: TGGTTTGGATCTGGAAGTCCTGGTTTACTCGCTGCTCGAGTTATATTCGAgtctgtactt ... attgtttcagGAGGTTTCCTTCAACATTGGCGAATTTATCAAGAATGGAGATACTGATCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caccaaactttattcaacgttttaagtgttttgccatctgattgtattgtttcagGAGGTTTCCTTCAACATTGGCGAATTTATCAAGAATGGAGATACTGATCAAGGATGCTAACGCAAAGGCGACTGCAAATATCAAACTTTTGAACTCG
                                              ttgtttc  CT-rich tract
     aactttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctgtacttatcattttctcatcttaaagctcaccaaactttattcaacgttttaagtgttttgccatctgattgtattgtttcagGAGGTTTCCTTCAACATTGGCGAATTTATCAAGAATGGAGATACTGATCAAGGATGCTAACGCAAAGGCGACTGCAAATATCAAACTTTTGAACTCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG