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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctactccgaatttgtgggaattttctactgatggaacttagctttctaactggtcgagttgttgattagatgcttttttttttttttttttttttgaatcagAGGCAGCGCATGGTGCTTCTGAGTCTGAGACTCGAGTCTCTTTAAGGAAGAAGAGGATAAAGCAGGATGATTTGGAGCCTGTAAAGAAATGTTCCGCCAG

Basic information

species Arabidopsis thaliana
transcript AT1G05900.2
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|86044417|gb|DR340172.1|DR340172
EST:     CAAATCAATCTCTGCAGAATCCCTAAATCTTCGTTCCGATTCCAATTCAG                         AGGCAGCGCATGGTGCTTCTGAGTCTGAGACTCGAGTCTCTTTAAGGAAGA
genomic: CAAATCAATCTCTGCAGAATCCCTAAATCTTCGTTCCGATTCCAATTCAGgtctactccg ... tttgaatcagAGGCAGCGCATGGTGCTTCTGAGTCTGAGACTCGAGTCTCTTTAAGGAAGA
EST: gi|86044415|gb|DR340170.1|DR340170
EST:     CAAATCAATCTCTGCAGAATCCCTAAATCTTCGTTCCGATTCCAATTCAG                         AGGCAGCGCATGGTGCTTCTGAGTCTGAGACTCGAGTCTCTTTAAGGAAGA
genomic: CAAATCAATCTCTGCAGAATCCCTAAATCTTCGTTCCGATTCCAATTCAGgtctactccg ... tttgaatcagAGGCAGCGCATGGTGCTTCTGAGTCTGAGACTCGAGTCTCTTTAAGGAAGA
EST: gi|86044414|gb|DR340169.1|DR340169
EST:     CAAATCAATCTCTGCAGAATCCCTAAATCTTCGTTCCGATTCCAATTCAG                         AGGCAGCGCATGGTGCTTCTGAGTCTGAGACTCGAGTCTCTTTAAGGAAGA
genomic: CAAATCAATCTCTGCAGAATCCCTAAATCTTCGTTCCGATTCCAATTCAGgtctactccg ... tttgaatcagAGGCAGCGCATGGTGCTTCTGAGTCTGAGACTCGAGTCTCTTTAAGGAAGA
EST: gi|86044416|gb|DR340171.1|DR340171
EST:     CAAATCAATCTCTGCAGAATCCCTAAATCTTCGTTCCGATTCCAATTCAG                         AGGCAGCGCATGGTGCTTCTGAGTCTGAGACTCGAGTCTCTTTAAGGAAGA
genomic: CAAATCAATCTCTGCAGAATCCCTAAATCTTCGTTCCGATTCCAATTCAGgtctactccg ... tttgaatcagAGGCAGCGCATGGTGCTTCTGAGTCTGAGACTCGAGTCTCTTTAAGGAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactggtcgagttgttgattagatgcttttttttttttttttttttttgaatcagAGGCAGCGCATGGTGCTTCTGAGTCTGAGACTCGAGTCTCTTTAAGGAAGAAGAGGATAAAGCAGGATGATTTGGAGCCTGTAAAGAAATGTTCCGCCAG
                  ttagatgctttttttt  CT-rich tract
              ttgattagatgctttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctactccgaatttgtgggaattttctactgatggaacttagctttctaactggtcgagttgttgattagatgcttttttttttttttttttttttgaatcagAGGCAGCGCATGGTGCTTCTGAGTCTGAGACTCGAGTCTCTTTAAGGAAGAAGAGGATAAAGCAGGATGATTTGGAGCCTGTAAAGAAATGTTCCGCCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA