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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAACTCTCGCTTTCTTCATCATCTCTTTCTCCGGTTGCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAGgtaggataatcgtacttttacttaatcttctcttcgtctcgatttatcagaaatatatggacttttgccaatatagccgatggtttagggtagaagaacc...

Basic information

species Arabidopsis thaliana
transcript AT5G27700.1
intron # 1
splice site 5'
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|163997786|gb|ES097608.1|ES097608
EST:     GTTGCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAG                         GACTCGTTTACTCTTTCAAAGCTAAGC
genomic: GTTGCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAGgtaggataat ... ggatatatagGACTCGTTTACTCTTTCAAAGCTAAGC
EST: gi|164164772|gb|ES094799.1|ES094799
EST:     GCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAG                         GACTCGTTTACTCTTTCAAAGCTAAGCTTTC
genomic: GCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAGgtaggataat ... ggatatatagGACTCGTTTACTCTTTCAAAGCTAAGCTTTC
EST: gi|164048188|gb|ES209094.1|ES209094
EST:     CCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAG                         GACTCGTTTACTCTTTCAAAGCTAAGCTTTCAAG
genomic: CCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAGgtaggataat ... ggatatatagGACTCGTTTACTCTTTCAAAGCTAAGCTTTCAAG
EST: gi|164060098|gb|ES183647.1|ES183647
EST:     GCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAG                         GACTCGTTTACTCTTTCAAAGCTAAGCTTTC
genomic: GCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAGgtaggataat ... ggatatatagGACTCGTTTACTCTTTCAAAGCTAAGCTTTC
EST: gi|116476469|gb|EG519061.1|EG519061
EST:     GCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAG                         GACTCGTTTACTCTTTCAAAGCTAAGCTTTCAAGATGCAAAACGAAGAGGG
genomic: GCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAGgtaggataat ... ggatatatagGACTCGTTTACTCTTTCAAAGCTAAGCTTTCAAGATGCAAAACGAAGAGGG
EST: gi|125304089|gb|EL318174.1|EL318174
EST:     GCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAG                         GACTCGTTTACTCTTTCAAAGCTAAGCTTT
genomic: GCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAGgtaggataat ... ggatatatagGACTCGTTTACTCTTTCAAAGCTAAGCTTT
EST: gi|164016213|gb|EL989999.1|EL989999
EST:     GCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAG                         GACTCGTTTACTCTT-CAAAGCTAAGCTTTCAAGATGCAAAAC
genomic: GCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAGgtaggataat ... ggatatatagGACTCGTTTACTCTTTCAAAGCTAAGCTTTCAAGATGCAAAAC
EST: gi|164004425|gb|ES139546.1|ES139546
EST:     GGTTGCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAG                         GACTCGTTTACTCTTTCAAAGCTAAGC
genomic: GGTTGCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAGgtaggataat ... ggatatatagGACTCGTTTACTCTTTCAAAGCTAAGC
EST: gi|116433168|gb|EG475760.1|EG475760
EST:     GCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAG                         GACTCGTTTACTCTTTCAAAGCTAAGCTTTCAAGACGCAAAACGAAGAGGG
genomic: GCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAGgtaggataat ... ggatatatagGACTCGTTTACTCTTTCAAAGCTAAGCTTTCAAGATGCAAAACGAAGAGGG
EST: gi|124778882|gb|EH868825.1|EH868825
EST:     GCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAG                         GACTCGTTTACTCTTTCAAAGCTAAGCTTTCAAG
genomic: GCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAGgtaggataat ... ggatatatagGACTCGTTTACTCTTTCAAAGCTAAGCTTTCAAG
EST: gi|125278067|gb|EL292152.1|EL292152
EST:     GCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAG                         GACTCGTTTACTCTTTCAAAGCTAAGCTTTCAAGA
genomic: GCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAGgtaggataat ... ggatatatagGACTCGTTTACTCTTTCAAAGCTAAGCTTTCAAGA
EST: gi|164208207|gb|ES165100.1|ES165100
EST:     CCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAG                         GACTCGTTTACTCTT-CAAAGC
genomic: CCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAGgtaggataat ... ggatatatagGACTCGTTTACTCTTTCAAAGC
EST: gi|164077646|gb|ES046686.1|ES046686
EST:     CCGGTTGCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAG                         GACTCGTTTACTCTTTCAAAGCTAAG
genomic: CCGGTTGCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAGgtaggataat ... ggatatatagGACTCGTTTACTCTTTCAAAGCTAAG
EST: gi|124980298|gb|EL053260.1|EL053260
EST:     GCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAG                         GACTCGTTTACTCTTTCAAAGCTAAGCTTTCAAG
genomic: GCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAGgtaggataat ... ggatatatagGACTCGTTTACTCTTTCAAAGCTAAGCTTTCAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAACTCTCGCTTTCTTCATCATCTCTTTCTCCGGTTGCCGCACCTGCTTCGCTTCTCCTCTCTCGCTCTCTACTCAGgtaggataatcgtacttttacttaatcttctcttcgtctcgatttatcagaaatatatggacttttgccaatatagccgatggtttagggtagaagaacc

- - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcttctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cagaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaagaac