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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattatattcttccagaatctcttatgtggattactcaattagaagtgtttaatttgttatctttctctaactcgttggttttgttatttgtgaattggtgcagACAAGCTTGTGGTCTCAACCTCTTGCTCTCTTCTCCACACTGCCGTTGACCTTATTAACGAGACTAAGCTTGATGCTGAAATCAAGTCGTGGCTAGCTTT

Basic information

species Arabidopsis thaliana
transcript AT3G03780.2
intron # 5
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|116471169|gb|EG513761.1|EG513761
EST:     CGCTGCCTCTCTCATCACCTTGCAGTCACTTGAGGGTGTTGTTGGTAAAG                         ACAAGCTTGTGGTCTCAACCTCTTGCTCTCTTCTCCACACTGCCGTTGACC
genomic: CGCTGCCTCTCTCATCACCTTGCAGTCACTTGAGGGTGTTGTTGGTAAAGgtattatatt ... attggtgcagACAAGCTTGTGGTCTCAACCTCTTGCTCTCTTCTCCACACTGCCGTTGACC
EST: gi|86057390|gb|DR353147.1|DR353147
EST:     CGCTGCCTCTCTCATCACCTTGCAGTCACTTGAGGGTGTTGTTGGTAAAG                         ACAAGCTTGTGGTCTCAACCTCTTGCTCTCTTCTTCACACTGCCGTTGACC
genomic: CGCTGCCTCTCTCATCACCTTGCAGTCACTTGAGGGTGTTGTTGGTAAAGgtattatatt ... attggtgcagACAAGCTTGTGGTCTCAACCTCTTGCTCTCTTCTCCACACTGCCGTTGACC
EST: gi|124957144|gb|EL032008.1|EL032008
EST:     CATCACCTTGCAGTCACTTGAGGGTGTTGTTGGTAAAG                         ACAAGCTTGTGGTCTCAACCTCTTGCTCTCTTCTCCACACTGCCGTTGACC
genomic: CATCACCTTGCAGTCACTTGAGGGTGTTGTTGGTAAAGgtattatatt ... attggtgcagACAAGCTTGTGGTCTCAACCTCTTGCTCTCTTCTCCACACTGCCGTTGACC
EST: gi|125271270|gb|EL285355.1|EL285355
EST:     CGCTGCCTCTCTCATCACCTTGCAGTCACTTGAGGGTGTTGTTGGTAAAG                         ACAAGCTTGTGGTCTCAACCTCT
genomic: CGCTGCCTCTCTCATCACCTTGCAGTCACTTGAGGGTGTTGTTGGTAAAGgtattatatt ... attggtgcagACAAGCTTGTGGTCTCAACCTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaatttgttatctttctctaactcgttggttttgttatttgtgaattggtgcagACAAGCTTGTGGTCTCAACCTCTTGCTCTCTTCTCCACACTGCCGTTGACCTTATTAACGAGACTAAGCTTGATGCTGAAATCAAGTCGTGGCTAGCTTT
                ctctaac  putative branch site (score: 2)
                              ttttgttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattatattcttccagaatctcttatgtggattactcaattagaagtgtttaatttgttatctttctctaactcgttggttttgttatttgtgaattggtgcagACAAGCTTGTGGTCTCAACCTCTTGCTCTCTTCTCCACACTGCCGTTGACCTTATTAACGAGACTAAGCTTGATGCTGAAATCAAGTCGTGGCTAGCTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG