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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaaaattcacatcttttgccttcacaaagatttttttttaatcatctaaatgaatgaattcaaactctgcagTTGCAGCATCTATGGAAAAGAACTGGGTCTTTTCCCGTGGAGCATCAGAGACTGCAAATAAACTGGCAAATGCAACAATTGGAGGAAGATGGACTCAAAG

Basic information

species Arabidopsis thaliana
transcript AT5G45430.1
intron # 12
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|116464923|gb|EG507515.1|EG507515
EST:     TTATAACGTTAAAGATTCAAAGTATAGACCACCGGGAAGGAAGAGTCCAC                         TTACAGCATCTATGGAAAAGAACTGGGTCTTTTCCCGTGGAGCATCAGAGA
genomic: TTATAACGTTAAAGATTCAAAGTATAGACCACCGGGAAGGAAGAGTCCACgtaagtaaaa ... aactctgcagTTGCAGCATCTATGGAAAAGAACTGGGTCTTTTCCCGTGGAGCATCAGAGA
EST: gi|125294110|gb|EL308195.1|EL308195
EST:     CGTTAAAGATTCAAAGTATAGACCACCGGGAAGGAAGAGTCCAC                         TTGCAGCATCTATGGAAAAGAACTGGGTCTTTTCCCGTGGAGCATCAGA
genomic: CGTTAAAGATTCAAAGTATAGACCACCGGGAAGGAAGAGTCCACgtaagtaaaa ... aactctgcagTTGCAGCATCTATGGAAAAGAACTGGGTCTTTTCCCGTGGAGCATCAGA
EST: gi|116464924|gb|EG507516.1|EG507516
EST:     TTATAACGTTAAAGATTCAAAGTATAGACCACCGGGAAGGAAGAGTCCAC                         TTACAGCATCTATGGAAAAGAACTGGGTCTTTTCCCGTGGAGCATCAGAGA
genomic: TTATAACGTTAAAGATTCAAAGTATAGACCACCGGGAAGGAAGAGTCCACgtaagtaaaa ... aactctgcagTTGCAGCATCTATGGAAAAGAACTGGGTCTTTTCCCGTGGAGCATCAGAGA
EST: gi|86087566|gb|DR383325.1|DR383325
EST:     TTATAACGTTAAAGATTCAAAGTATAGACCACCGGGAAGGAAGAGTCCAC                         TTGCAGCATCTATGGAAAAGAACTGGGTCTTTTCCCGTGGAGCATCAGAGA
genomic: TTATAACGTTAAAGATTCAAAGTATAGACCACCGGGAAGGAAGAGTCCACgtaagtaaaa ... aactctgcagTTGCAGCATCTATGGAAAAGAACTGGGTCTTTTCCCGTGGAGCATCAGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gccttcacaaagatttttttttaatcatctaaatgaatgaattcaaactctgcagTTGCAGCATCTATGGAAAAGAACTGGGTCTTTTCCCGTGGAGCATCAGAGACTGCAAATAAACTGGCAAATGCAACAATTGGAGGAAGATGGACTCAAAG
                          atctaaa  putative branch site (score: 3)
        aaagatttttttttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtaaaattcacatcttttgccttcacaaagatttttttttaatcatctaaatgaatgaattcaaactctgcagTTGCAGCATCTATGGAAAAGAACTGGGTCTTTTCCCGTGGAGCATCAGAGACTGCAAATAAACTGGCAAATGCAACAATTGGAGGAAGATGGACTCAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA