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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctttgatccaatttcgttttccaaaatctcgatttttttcgtttctgttctgattactcttccgattcttgtatttgggttttgtttttttctagGGTTTTACATTGGCAACCAAACCAAGGATCAACAGTAAGCAGCCAAATCCTAAACGAAGCAACACAATGTGTAGAGAGCATCAATGGTGTGAAAGAAGGA

Basic information

species Arabidopsis thaliana
transcript AT2G28230.1
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|164172624|gb|ES100713.1|ES100713
EST:     GTGTTTGTTTTGTCATTCTCCCTCAACAACAATGCCCGTCAAGTG                         GGTTTTACATTGGCAACCAAACCAAGGATCAACAGTAAG
genomic: GTGTTTGTTTTGTCATTCTCCCTCAACAACAATGCCCGTCAAGTGgtaagctttg ... ttttttctagGGTTTTACATTGGCAACCAAACCAAGGATCAACAGTAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttctgttctgattactcttccgattcttgtatttgggttttgtttttttctagGGTTTTACATTGGCAACCAAACCAAGGATCAACAGTAAGCAGCCAAATCCTAAACGAAGCAACACAATGTGTAGAGAGCATCAATGGTGTGAAAGAAGGA
       ttctgat  putative branch site (score: 3)
                                       ttttgtttttttct  putative PPT
                                       ttttgtttttttcta  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagctttgatccaatttcgttttccaaaatctcgatttttttcgtttctgttctgattactcttccgattcttgtatttgggttttgtttttttctagGGTTTTACATTGGCAACCAAACCAAGGATCAACAGTAAGCAGCCAAATCCTAAACGAAGCAACACAATGTGTAGAGAGCATCAATGGTGTGAAAGAAGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG