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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattacttacataccttttgggtgtttttgtttgttttagtctcacagtagaatgtttaacaatcatcttgacttagctacccgggttttcttcagATTAATATTCAGATGGCCAATGGTGAGAAGAAGACGATAAGGAAAAACGTAACTGAAAGAATGTACTCT

Basic information

species Arabidopsis thaliana
transcript AT5G27395.1
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|124811870|gb|EH896736.1|EH896736
EST:     GGTATTCGAAGAATACGTTCTACATAGAAGCACTAGAGTTATACAAACAG                         ATTAATATTCAGA
genomic: GGTATTCGAAGAATACGTTCTACATAGAAGCACTAGAGTTATACAAACAGgtattactta ... ttttcttcagATTAATATTCAGA
EST: gi|116484011|gb|EG526603.1|EG526603
EST:     GGTATTCGAAGAATACGTTCTACATAGAAGCACTAGAGTTATACAAACAG                         ATTAATATTCAGATGGCCAATGGTGAGAAGAAGACGATAAGGAAAAACGTA
genomic: GGTATTCGAAGAATACGTTCTACATAGAAGCACTAGAGTTATACAAACAGgtattactta ... ttttcttcagATTAATATTCAGATGGCCAATGGTGAGAAGAAGACGATAAGGAAAAACGTA
EST: gi|116484010|gb|EG526602.1|EG526602
EST:     GGTATTCGAAGAATACGTTCTACATAGAAGCACTAGAGTTATACAAACAG                         ATTAATATTCAGATGGCCAATGGTGAGAAGAAGACGATAAGGAAAAACGTA
genomic: GGTATTCGAAGAATACGTTCTACATAGAAGCACTAGAGTTATACAAACAGgtattactta ... ttttcttcagATTAATATTCAGATGGCCAATGGTGAGAAGAAGACGATAAGGAAAAACGTA
EST: gi|86015126|gb|DR310872.1|DR310872
EST:     GGTATTCGAAGAATACGTTCTACATAGAAGCACTAGAGTTATACAAACAG                         ATTAATATTCAGATGGCCAATGGTGAGAAGAAGACGATAAGGGAAAACGT
genomic: GGTATTCGAAGAATACGTTCTACATAGAAGCACTAGAGTTATACAAACAGgtattactta ... ttttcttcagATTAATATTCAGATGGCCAATGGTGAGAAGAAGACGATAAGGAAAAACGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcacagtagaatgtttaacaatcatcttgacttagctacccgggttttcttcagATTAATATTCAGATGGCCAATGGTGAGAAGAAGACGATAAGGAAAAACGTAACTGAAAGAATGTACTCT
                         tcttgac  putative branch site (score: 3)
                                             ttttcttc  putative PPT
          aatgtttaa  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattacttacataccttttgggtgtttttgtttgttttagtctcacagtagaatgtttaacaatcatcttgacttagctacccgggttttcttcagATTAATATTCAGATGGCCAATGGTGAGAAGAAGACGATAAGGAAAAACGTAACTGAAAGAATGTACTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA