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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttctctcaaactctgatacagacacattgaacaatatactcaagacttctttaaaaattgcaaaatgatttatcaaatgttgagtaagagaacaagattgtttatgtgggttgttctccaatacctgattctttttttgtgatgcctcttcatacattgtctctctaagaaactgtttaatgtggcagACGGCTTAATGACAACCGATTGACCGGTCCAATCCCTAGAGCACTCACGGCAATCCCAAGCCTTAAAGTTGT

Basic information

species Arabidopsis thaliana
transcript AT5G21090.1
intron # 3
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|124828005|gb|EH912871.1|EH912871
EST:     AGGGATAGTTCCCACTTCTTTGGGAAAATTGAAGTACTACTGGTCTTTTT                         ACGGCTTAATGACAACCGATTGACCGGTCCAATCCCTAGAGCACTCACGGC
genomic: AGGGATAGTTCCCACTTCTTTGGGAAAATTGAAGT-CT-CTGGTCTTTTTgtaagtttct ... aatgtggcagACGGCTTAATGACAACCGATTGACCGGTCCAATCCCTAGAGCACTCACGGC
EST: gi|124887996|gb|EH966898.1|EH966898
EST:     ACTTCTTTGGGAAAATTGAAGTCTCTGGTCTTTTT                         ACGGCTTAATGACAACCGATTGACCGGTCCAATCCCTAGAGCACTCACGGC
genomic: ACTTCTTTGGGAAAATTGAAGTCTCTGGTCTTTTTgtaagtttct ... aatgtggcagACGGCTTAATGACAACCGATTGACCGGTCCAATCCCTAGAGCACTCACGGC
EST: gi|116443563|gb|EG486155.1|EG486155
EST:     ACAGGGATAGTTCCCACTTCTTTGGGAAAATTGAAGTCTCTGGTCTTTTT                         ACGGCTTAATGACAACCGATTGACCGGTCCAATCCCTAGAGCACTCACGGC
genomic: ACAGGGATAGTTCCCACTTCTTTGGGAAAATTGAAGTCTCTGGTCTTTTTgtaagtttct ... aatgtggcagACGGCTTAATGACAACCGATTGACCGGTCCAATCCCTAGAGCACTCACGGC
EST: gi|116456652|gb|EG499244.1|EG499244
EST:     ACAGGGATAGTTCCCACTTCTTTGGGAAAATTGAAGTCTCTGGTCTTTTT                         ACGGCTTAATGACAACCGATTGACCGGTCCAATCCC
genomic: ACAGGGATAGTTCCCACTTCTTTGGGAAAATTGAAGTCTCTGGTCTTTTTgtaagtttct ... aatgtggcagACGGCTTAATGACAACCGATTGACCGGTCCAATCCC
EST: gi|124839282|gb|EH923721.1|EH923721
EST:     ACAGGGATAGTTCCCACTTCTTTGGGAAAATTGAAGTCTCTGGTCTTTTT                         ACGGCTTAATGA
genomic: ACAGGGATAGTTCCCACTTCTTTGGGAAAATTGAAGTCTCTGGTCTTTTTgtaagtttct ... aatgtggcagACGGCTTAATGA
EST: gi|301501628|gb|HO207168.1|HO207168
EST:     ACAGGGATAGTTCCCACTTCTTTGGGAAAATTGAAGTCTCTGGTCTTTTT                         ACGGCTTAATGACAACCGATTGACCGGTCCAATCCCTAGAGCACTCACGGC
genomic: ACAGGGATAGTTCCCACTTCTTTGGGAAAATTGAAGTCTCTGGTCTTTTTgtaagtttct ... aatgtggcagACGGCTTAATGACAACCGATTGACCGGTCCAATCCCTAGAGCACTCACGGC
EST: gi|124975110|gb|EL048628.1|EL048628
EST:     TGAAGTCTCTGGTCTTTTT                         ACGGCTTAATGACAACCGATTGACCGGTCCAATCCCTAGAGCACTCACGGC
genomic: TGAAGTCTCTGGTCTTTTTgtaagtttct ... aatgtggcagACGGCTTAATGACAACCGATTGACCGGTCCAATCCCTAGAGCACTCACGGC
EST: gi|124977932|gb|EL051201.1|EL051201
EST:     ACAGGGATAGTTCCCACTTCTTTGGGAAAATTGAAGTCTCTGGTCTTTTT                         ACGGCTTAATGACAACCGA
genomic: ACAGGGATAGTTCCCACTTCTTTGGGAAAATTGAAGTCTCTGGTCTTTTTgtaagtttct ... aatgtggcagACGGCTTAATGACAACCGA
EST: gi|125183061|gb|EL198170.1|EL198170
EST:     GTTCCCACTTCTTTGGGAAAATTAGAAGTCTCTGGTCTTTTT                         ACGGCTTAATGACAACCGATTGACCGGTCCAATCCCTAGAGCACTCACGGC
genomic: GTTCCCACTTCTTTGGGAAAATT-GAAGTCTCTGGTCTTTTTgtaagtttct ... aatgtggcagACGGCTTAATGACAACCGATTGACCGGTCCAATCCCTAGAGCACTCACGGC
EST: gi|164065540|gb|EL992723.1|EL992723
EST:     ACAGGGATAGTTCCCACTTCTT-GGGAAAATTGAAGTCTCTGGTCTTTTT                         ACGGCTTAATGAACAACCGATTGAC
genomic: ACAGGGATAGTTCCCACTTCTTTGGGAAAATTGAAGTCTCTGGTCTTTTTgtaagtttct ... aatgtggcagACGGCTTAATGA-CAACCGATTGAC
EST: gi|152038285|gb|BP812943.2|BP812943
EST:     ACAGGGATAGTTCCCACTTCTTTGGGAAAATTGAAGTCTCTGGTCTTTTT                         ACGGCTTAATGACAACCGATTGACCGGTCCAATCCCTAGAGCACTCACGGC
genomic: ACAGGGATAGTTCCCACTTCTTTGGGAAAATTGAAGTCTCTGGTCTTTTTgtaagtttct ... aatgtggcagACGGCTTAATGACAACCGATTGACCGGTCCAATCCCTAGAGCACTCACGGC
EST: gi|116456643|gb|EG499235.1|EG499235
EST:     ACAGGGATAGTTCCCACTTCTTTGGGAAAATTGAAGTCTCTGGTCTTTTT                         ACGGCTTAATGACAACCGATTGACCGGTCCAATCCC
genomic: ACAGGGATAGTTCCCACTTCTTTGGGAAAATTGAAGTCTCTGGTCTTTTTgtaagtttct ... aatgtggcagACGGCTTAATGACAACCGATTGACCGGTCCAATCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttgtgatgcctcttcatacattgtctctctaagaaactgtttaatgtggcagACGGCTTAATGACAACCGATTGACCGGTCCAATCCCTAGAGCACTCACGGCAATCCCAAGCCTTAAAGTTGT
                                         gtttaat  putative branch site (score: 4)
                                        tgtttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtttctctcaaactctgatacagacacattgaacaatatactcaagacttctttaaaaattgcaaaatgatttatcaaatgttgagtaagagaacaagattgtttatgtgggttgttctccaatacctgattctttttttgtgatgcctcttcatacattgtctctctaagaaactgtttaatgtggcagACGGCTTAATGACAACCGATTGACCGGTCCAATCCCTAGAGCACTCACGGCAATCCCAAGCCTTAAAGTTGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA