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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcatttcattaatctcaataccattaggtttctgttttttccctcagtttttgattgtaagatattcacaatggcaatatcctcgtgttgcagGCAATGAAATACCTGTCGATAGCTGGAGAAGACGATATATCATGGTCAGTCATCCAAGCTGCATTCTCTTCAACCGCTCAAACCGCAATCATACCGATGC

Basic information

species Arabidopsis thaliana
transcript AT5G64860.1
intron # 14
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|86087676|gb|DR383435.1|DR383435
EST:     ATTCGAGGCTGGTGGGACACTCTGGACCAAGAAGAAAAGTCTAAG                         GCAATGAAATACCTGTCGATAGCTGGAGAAGACGATATATCATGGTCAGTC
genomic: ATTCGAGGCTGGTGGGACACTCTGGACCAAGAAGAAAAGTCTAAGgtcatttcat ... cgtgttgcagGCAATGAAATACCTGTCGATAGCTGGAGAAGACGATATATCATGGTCAGTC
EST: gi|125122858|gb|EL169307.1|EL169307
EST:     ATTCGAGGCTGGTGGGACACTCTGGACCAAGAAGAAAAGTCTAAG                         GCAATGAAATACCTGTCGATAGCTGGAGAA
genomic: ATTCGAGGCTGGTGGGACACTCTGGACCAAGAAGAAAAGTCTAAGgtcatttcat ... cgtgttgcagGCAATGAAATACCTGTCGATAGCTGGAGAA
EST: gi|124847089|gb|EH931526.1|EH931526
EST:     TGGTGGGACACTCTGGACCAAGAAG-AAAGTCTAAG                         GCAATGAAATACCTGTCGATAGCTGGAGAAGACGATATATCATGGTCAGTC
genomic: TGGTGGGACACTCTGGACCAAGAAGAAAAGTCTAAGgtcatttcat ... cgtgttgcagGCAATGAAATACCTGTCGATAGCTGGAGAAGACGATATATCATGGTCAGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccctcagtttttgattgtaagatattcacaatggcaatatcctcgtgttgcagGCAATGAAATACCTGTCGATAGCTGGAGAAGACGATATATCATGGTCAGTCATCCAAGCTGCATTCTCTTCAACCGCTCAAACCGCAATCATACCGATGC
          ttttgat  putative branch site (score: 4)
                                       tatcctc  putative PPT
         tttttgatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcatttcattaatctcaataccattaggtttctgttttttccctcagtttttgattgtaagatattcacaatggcaatatcctcgtgttgcagGCAATGAAATACCTGTCGATAGCTGGAGAAGACGATATATCATGGTCAGTCATCCAAGCTGCATTCTCTTCAACCGCTCAAACCGCAATCATACCGATGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC