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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatgcaggagaataatcatccagttttgagtttgcatcttactaagaagctttctatataccttttgcagAGCGGCTCATGAGGCTGGTGCTATGACCGCAATTGTAAATATAGGCGAAACAAGAGCTGATGACATTGTTCCATTGAAAATCAATGCTAGGGTTGGTGAG

Basic information

species Arabidopsis thaliana
transcript AT5G09230.1
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|86077600|gb|DR373357.1|DR373357
EST:     CTCGTGTTGGGTTCATCCTTAATGACAATGTCTGCTTTTCGCCTTTGCAG                         AGCGGCTCATGAGGCTGGTGCTATGACCGCAATTGTAAATATAGGCGAAAC
genomic: CTCGTGTTGGGTTCATCCTTAATGACAATGTCTGCTTTTCGCCTTTGCAGgtgatgcagg ... ccttttgcagAGCGGCTCATGAGGCTGGTGCTATGACCGCAATTGTAAATATAGGCGAAAC
EST: gi|86077317|gb|DR373074.1|DR373074
EST:     CTCGTGTTGGGTTCATCCTTAATGACAATGTCTGCTTTTCGCCTTTGCAG                         AGCGGCTCATGAGGCTGGTGCTATGACCGCAATTGTAAATATAGGCGAAAC
genomic: CTCGTGTTGGGTTCATCCTTAATGACAATGTCTGCTTTTCGCCTTTGCAGgtgatgcagg ... ccttttgcagAGCGGCTCATGAGGCTGGTGCTATGACCGCAATTGTAAATATAGGCGAAAC
EST: gi|86076124|gb|DR371881.1|DR371881
EST:     CTCGTGTTGGGTTCATCCTTAATGACAATGTCTGCTTTTCGCCTTTGCAG                         AGCGGCTCATGAGGCTGGTGCTATGACCGCAATTGTAAATATAGGCGAAAC
genomic: CTCGTGTTGGGTTCATCCTTAATGACAATGTCTGCTTTTCGCCTTTGCAGgtgatgcagg ... ccttttgcagAGCGGCTCATGAGGCTGGTGCTATGACCGCAATTGTAAATATAGGCGAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatccagttttgagtttgcatcttactaagaagctttctatataccttttgcagAGCGGCTCATGAGGCTGGTGCTATGACCGCAATTGTAAATATAGGCGAAACAAGAGCTGATGACATTGTTCCATTGAAAATCAATGCTAGGGTTGGTGAG
                    atcttac  putative branch site (score: 3)
                                           tacctttt  putative PPT
                                   tttctatata  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgatgcaggagaataatcatccagttttgagtttgcatcttactaagaagctttctatataccttttgcagAGCGGCTCATGAGGCTGGTGCTATGACCGCAATTGTAAATATAGGCGAAACAAGAGCTGATGACATTGTTCCATTGAAAATCAATGCTAGGGTTGGTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT