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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCTTATCTCCAACCTGATACAGAAACTGATTACGATAGCGAGCTTAACTTGCCTGCAGCACCAACAGGACACAATGGAGCTCCACATGGAAGAGCTCAGgttaacttttaattcttggaattttgaaatgcttcaagtatgattaccttttgatggttggctaatgagaccgtttaacgatgtgattaacag

Basic information

species Arabidopsis thaliana
transcript AT3G10640.1
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|125002222|gb|EL074491.1|EL074491
EST:     TGCCTGCAGCACCAACAGGACACAATGGAGCTCCACATGGAAGAGCTCAG                         GCTGAGGACGAATTTGGATTACCAGCAGTGCCACG
genomic: TGCCTGCAGCACCAACAGGACACAATGGAGCTCCACATGGAAGAGCTCAGgttaactttt ... tgattaacagGCTGAGGACGAATTTGGATTACCAGCAGTGCCACG
EST: gi|19741575|gb|AU226928.1|AU226928
EST:     TGCCTGCAGCACCAACAGGACACAATGGAGCTCCACATGGAAGAGCTCAG                         GCTGAGGACGAATTTGGATTACCAGCAGTGCCACGAGCTTCTCTCCGGGGT
genomic: TGCCTGCAGCACCAACAGGACACAATGGAGCTCCACATGGAAGAGCTCAGgttaactttt ... tgattaacagGCTGAGGACGAATTTGGATTACCAGCAGTGCCACGAGCTTCTCTCCGGGGT
EST: gi|125076782|gb|EL139810.1|EL139810
EST:     TGCCTGCAGCACCAACAGGACACAATGGAGCTCCACATGGAAGAGCTCAG                         GCTGAGGACGA
genomic: TGCCTGCAGCACCAACAGGACACAATGGAGCTCCACATGGAAGAGCTCAGgttaactttt ... tgattaacagGCTGAGGACGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCTTATCTCCAACCTGATACAGAAACTGATTACGATAGCGAGCTTAACTTGCCTGCAGCACCAACAGGACACAATGGAGCTCCACATGGAAGAGCTCAGgttaacttttaattcttggaattttgaaatgcttcaagtatgattaccttttgatggttggctaatgagaccgtttaacgatgtgattaacag

- - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA