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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttgttattcatttcgcttatatcattttccaactgtgtagatgatctcaaattggtaaacaacaaatgttaaacaactcaatcctgtatagGTACTACACAGATCCATCGGGAACATTCTGGCAATGCAATGCAAAGGCAATTGGGTCTGGCTCAGAAGGAGCTGATAGTTCTCTCCAAGAGCAATTCAAC

Basic information

species Arabidopsis thaliana
transcript AT3G14290.1
intron # 7
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|116423822|gb|EG466414.1|EG466414
EST:     TCCCTTCTCATTGCTGGGCATGATGAAAATGGACCGAGCCT                         GTACTACACAGATCCATCGGGAACATTCTGGCAATGCAATGCAAAGGCAAT
genomic: TCCCTTCTCATTGCTGGGCATGATGAAAATGGACCGAGCCTgtaagttgtt ... tcctgtatagGTACTACACAGATCCATCGGGAACATTCTGGCAATGCAATGCAAAGGCAAT
EST: gi|124737265|gb|EH828667.1|EH828667
EST:     TTTGGAGTATCCCTTCTCATTGCTGGGCATGATGAAAATGGACCGAGCCT                         GTACTACACAGATTCATCGGGAACATTCTGGCAATGCA
genomic: TTTGGAGTATCCCTTCTCATTGCTGGGCATGATGAAAATGGACCGAGCCTgtaagttgtt ... tcctgtatagGTACTACACAGATCCATCGGGAACATTCTGGCAATGCA
EST: gi|164196326|gb|ES078725.1|ES078725
EST:     TTTGGAGTATCCCTTCTCATTGCTGGGCATGATGAAAATGGACCGAGCCT                         GTACTACACAGATCCATCGGGAACATTC
genomic: TTTGGAGTATCCCTTCTCATTGCTGGGCATGATGAAAATGGACCGAGCCTgtaagttgtt ... tcctgtatagGTACTACACAGATCCATCGGGAACATTC
EST: gi|124846021|gb|EH930458.1|EH930458
EST:     TTTGGAGTATCCCTTCTCATTGCTGGGCATGATGAAAATGGACCGAGCCT                         GTACTACACAGATCCATCGGGAACATTCTG
genomic: TTTGGAGTATCCCTTCTCATTGCTGGGCATGATGAAAATGGACCGAGCCTgtaagttgtt ... tcctgtatagGTACTACACAGATCCATCGGGAACATTCTG
EST: gi|164115904|gb|ES036767.1|ES036767
EST:     TTTGGAGTATCCCTTCTCATTGCTGGGCATGATGAAAATGGACCGAGCCT                         GTACTACACAGATCCA
genomic: TTTGGAGTATCCCTTCTCATTGCTGGGCATGATGAAAATGGACCGAGCCTgtaagttgtt ... tcctgtatagGTACTACACAGATCCA
EST: gi|164214274|gb|ES051976.1|ES051976
EST:     TTTGGAGTATCCCTTCTCATTGCTGGGCATGATGTAAATGGACCGAGCCT                         GTACTACACAGAT
genomic: TTTGGAGTATCCCTTCTCATTGCTGGGCATGATGAAAATGGACCGAGCCTgtaagttgtt ... tcctgtatagGTACTACACAGAT
EST: gi|164219158|gb|ES024498.1|ES024498
EST:     TCCCTTCTCATTGCTGGGCATGATGAAAATGGACCGAGCCT                         GTACTACACAGATCCATCGGGAACATTCTGGCAATGCAATGCAAAGGCAA
genomic: TCCCTTCTCATTGCTGGGCATGATGAAAATGGACCGAGCCTgtaagttgtt ... tcctgtatagGTACTACACAGATCCATCGGGAACATTCTGGCAATGCAATGCAAAGGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtagatgatctcaaattggtaaacaacaaatgttaaacaactcaatcctgtatagGTACTACACAGATCCATCGGGAACATTCTGGCAATGCAATGCAAAGGCAATTGGGTCTGGCTCAGAAGGAGCTGATAGTTCTCTCCAAGAGCAATTCAAC
                           aaatgttaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttgttattcatttcgcttatatcattttccaactgtgtagatgatctcaaattggtaaacaacaaatgttaaacaactcaatcctgtatagGTACTACACAGATCCATCGGGAACATTCTGGCAATGCAATGCAAAGGCAATTGGGTCTGGCTCAGAAGGAGCTGATAGTTCTCTCCAAGAGCAATTCAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA