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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATGgtactactattaccagctgagtccaataaacatttgaaattttcttttttcttttgcaactctgtttggggagtctatatttaatcctttatttgatgaaaaccttgcag

Basic information

species Arabidopsis thaliana
transcript AT1G08110.2
intron # 6
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|86086861|gb|DR382620.1|DR382620
EST:     CGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCMAMCGATG                         GAAAGATGAAGAATATAGCCTTCATTAAGGATCCTGATGGCTACTGGATCG
genomic: CGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATGgtactactat ... aaccttgcagGAAAGATGAAGAATATAGCCTTCATTAAGGATCCTGATGGCTACTGGATCG
EST: gi|124934027|gb|EL011132.1|EL011132
EST:     TTTGCCAAGAAACCAAACGATG                         GAAAGATGAAGAATATAGCCTTCATTAAGGATCCTGATGGCTACTGGATCG
genomic: TTTGCCAAGAAACCAAACGATGgtactactat ... aaccttgcagGAAAGATGAAGAATATAGCCTTCATTAAGGATCCTGATGGCTACTGGATCG
EST: gi|124709913|gb|EH801315.1|EH801315
EST:     TTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATG                         GAAAGATGAAGAATATAGCCTTCATTAAGGATCCTGATGGCTACTGGATCG
genomic: TTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATGgtactactat ... aaccttgcagGAAAGATGAAGAATATAGCCTTCATTAAGGATCCTGATGGCTACTGGATCG
EST: gi|86079248|gb|DR375005.1|DR375005
EST:     CGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATG                         GAAAGATGAAGAATATAGCCTTCATTAAGGATCCTGATGGCTACTGGATCG
genomic: CGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATGgtactactat ... aaccttgcagGAAAGATGAAGAATATAGCCTTCATTAAGGATCCTGATGGCTACTGGATCG
EST: gi|86086149|gb|DR381908.1|DR381908
EST:     CGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATG                         GAAAGATGAAGAATATAGCCTTCATTAAGGATCCTGATGGCTACTGGATCG
genomic: CGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATGgtactactat ... aaccttgcagGAAAGATGAAGAATATAGCCTTCATTAAGGATCCTGATGGCTACTGGATCG
EST: gi|164099506|gb|ES113851.1|ES113851
EST:     AACCAAACGATG                         GAAAGATGAAGAATATAGCCTTCATTAAGGATCCTGATGGCTACTGGATCG
genomic: AACCAAACGATGgtactactat ... aaccttgcagGAAAGATGAAGAATATAGCCTTCATTAAGGATCCTGATGGCTACTGGATCG
EST: gi|301501106|gb|HO206646.1|HO206646
EST:     CGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATG                         GAAAGATGAAGAATATAGCCTTCATTAAGGATCCTGATGGCTACTGGATCG
genomic: CGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATGgtactactat ... aaccttgcagGAAAGATGAAGAATATAGCCTTCATTAAGGATCCTGATGGCTACTGGATCG
EST: gi|124954954|gb|EL030008.1|EL030008
EST:     CGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATG                         GAAAGATGAAGAATATA
genomic: CGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATGgtactactat ... aaccttgcagGAAAGATGAAGAATATA
EST: gi|124999439|gb|EL071708.1|EL071708
EST:     CGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATG                         GAAAGATGAAGAATATAGCCTTCATTAAGGATCCTG
genomic: CGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATGgtactactat ... aaccttgcagGAAAGATGAAGAATATAGCCTTCATTAAGGATCCTG
EST: gi|124726391|gb|EH817793.1|EH817793
EST:     ATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATG                         GAAAGATGAAGAATATAGCCTTCATTAAGGATCCTGATGGCTACTGGATCG
genomic: ATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATGgtactactat ... aaccttgcagGAAAGATGAAGAATATAGCCTTCATTAAGGATCCTGATGGCTACTGGATCG
EST: gi|125117533|gb|EL166636.1|EL166636
EST:     GAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATG                         G-AAGATGAAGAATATAGCCTTCATTAAGGATCCTGATGGCTACTGGATCG
genomic: GAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATGgtactactat ... aaccttgcagGAAAGATGAAGAATATAGCCTTCATTAAGGATCCTGATGGCTACTGGATCG
EST: gi|125090908|gb|EL148731.1|EL148731
EST:     CGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATG                         GAAAGATGAAGAATATAGCCTTCA
genomic: CGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATGgtactactat ... aaccttgcagGAAAGATGAAGAATATAGCCTTCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATGgtactactattaccagctgagtccaataaacatttgaaattttcttttttcttttgcaactctgtttggggagtctatatttaatcctttatttgatgaaaaccttgcag

- - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA