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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcatagcatcaccgaaactctattatgaatactatgtattgatacaatattggtataagcaacggttttatcacagaatgcttgagcttttaccacgcagGGTAACTTGTACACACCAGCGAAACTACCACCTAAGCCACTCGAATTCTGGGCATATGAG

Basic information

species Arabidopsis thaliana
transcript AT5G03880.1
intron # 8
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|125189120|gb|EL204074.1|EL204074
EST:     GCTATAACAGCAGGCTTTGCAATGATTGGTCGTATGGGAAAG                         GGTAACTTGTACACACCAGCGAAA
genomic: GCTATAACAGCAGGCTTTGCAATGATTGGTCGTATGGGAAAGgtaagaacaa ... taccacgcagGGTAACTTGTACACACCAGCGAAA
EST: gi|116475228|gb|EG517820.1|EG517820
EST:     GCTATAACAGCAGGCTTTGCAATGATTGGTCGTATGGGAAAG                         GGTAACTTGTACACACCAGCGAAACTACCACCTAAGCCACTCGAATTCTGG
genomic: GCTATAACAGCAGGCTTTGCAATGATTGGTCGTATGGGAAAGgtaagaacaa ... taccacgcagGGTAACTTGTACACACCAGCGAAACTACCACCTAAGCCACTCGAATTCTGG
EST: gi|124796837|gb|EH886516.1|EH886516
EST:     GCTATAACAGCAGGCTTTGCAATGATTGGTCGTATGGGAAAG                         GGTAACTTGTACACACCAGCGAAACTACCAC
genomic: GCTATAACAGCAGGCTTTGCAATGATTGGTCGTATGGGAAAGgtaagaacaa ... taccacgcagGGTAACTTGTACACACCAGCGAAACTACCAC
EST: gi|116475229|gb|EG517821.1|EG517821
EST:     GCTATAACAGCAGGCTTTGCAATGATTGGTCGTATGGGAAAG                         GGTAACTTGTACACACCAGCGAAACTACCACCTAAGCCACTCGAATTCTGG
genomic: GCTATAACAGCAGGCTTTGCAATGATTGGTCGTATGGGAAAGgtaagaacaa ... taccacgcagGGTAACTTGTACACACCAGCGAAACTACCACCTAAGCCACTCGAATTCTGG
EST: gi|124817776|gb|EH902642.1|EH902642
EST:     CTATAACAGCAGGCTTTGCAATGATTGGTCGTATGGGAAAG                         GGTAACTTGTACACACCAGCGAAACTACCACCTAA
genomic: CTATAACAGCAGGCTTTGCAATGATTGGTCGTATGGGAAAGgtaagaacaa ... taccacgcagGGTAACTTGTACACACCAGCGAAACTACCACCTAA
EST: gi|124890331|gb|EH969233.1|EH969233
EST:     GCTATAACAGCAGGCTTTGCAATGATTGGTCGTATGGGAAAG                         GGTAACTTGTACACACCAGCGAAACTACCACCTAAGCCACTCGAATTCT
genomic: GCTATAACAGCAGGCTTTGCAATGATTGGTCGTATGGGAAAGgtaagaacaa ... taccacgcagGGTAACTTGTACACACCAGCGAAACTACCACCTAAGCCACTCGAATTCT
EST: gi|86080278|gb|DR376035.1|DR376035
EST:     GCTATAACAGCAGGCTTTGCAATGATTGGTCGTATGGGAAAG                         GGTAACTTGTACACACCAGCGAAACTACCACCTAAGCCACTCGAATTCTGG
genomic: GCTATAACAGCAGGCTTTGCAATGATTGGTCGTATGGGAAAGgtaagaacaa ... taccacgcagGGTAACTTGTACACACCAGCGAAACTACCACCTAAGCCACTCGAATTCTGG
EST: gi|125264793|gb|EL278878.1|EL278878
EST:     TAACGGCTATAACAGCAGGCTTTGCAATGATTGGTCGTATGGGAAAG                         GGTAACTTGTACACACCAGCGAAACTACCACCTAAGCCACTCGAATTCTGG
genomic: TAACGGCTATAACAGCAGGCTTTGCAATGATTGGTCGTATGGGAAAGgtaagaacaa ... taccacgcagGGTAACTTGTACACACCAGCGAAACTACCACCTAAGCCACTCGAATTCTGG
EST: gi|116483992|gb|EG526584.1|EG526584
EST:     GCTATAACAGCAGGCTTTGCAATGATTGGTCGTATGGGAAAG                         GGTAACTTGTACACACCAGCGAAACTACCACCTAAGCCACTCGAATTCTGG
genomic: GCTATAACAGCAGGCTTTGCAATGATTGGTCGTATGGGAAAGgtaagaacaa ... taccacgcagGGTAACTTGTACACACCAGCGAAACTACCACCTAAGCCACTCGAATTCTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatattggtataagcaacggttttatcacagaatgcttgagcttttaccacgcagGGTAACTTGTACACACCAGCGAAACTACCACCTAAGCCACTCGAATTCTGGGCATATGAG
                                         cttttacc  CT-rich tract
                    ttttatca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcatagcatcaccgaaactctattatgaatactatgtattgatacaatattggtataagcaacggttttatcacagaatgcttgagcttttaccacgcagGGTAACTTGTACACACCAGCGAAACTACCACCTAAGCCACTCGAATTCTGGGCATATGAG

- - - - - -ccgaaac
- - - - - - - - - - - - - - - - - - - - gatacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - aagcaac