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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttggtttaaagctttgaacttttgaaataccctatttccaatttgagctttttcgctttcctgattcgatgattaagtatttaagtagctgaatttgatttgcagGAGGATCGAGCCATGCCTCAGCTTCTT

Basic information

species Arabidopsis thaliana
transcript AT1G12520.3
intron # 1
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|125222332|gb|EL236417.1|EL236417
EST:     CGTAATCTCCATCAG                         GAGGATCGAGCCATGCCTCAGCTTCTT
genomic: CGTAATCTCCATCAGgttttggttt ... tgatttgcagGAGGATCGAGCCATGCCTCAGCTTCTT
EST: gi|125264550|gb|EL278635.1|EL278635
EST:     TTAGCTCTCCGATGGCGACTGCTCTCACTTCTGATCGTAATCTCCATCAG                         GAGGATCGAGCCA
genomic: TTAGCTCTCCGATGGCGACTGCTCTCACTTCTGATCGTAATCTCCATCAGgttttggttt ... tgatttgcagGAGGATCGAGCCA
EST: gi|124778915|gb|EH868858.1|EH868858
EST:     TTAGCTCTCCGATGGCGACTGCTCTCACTTCTGATCGTAATCTCCATCAG                         GAGGATCGAGCCATGCCTCAGCTTCTTACTGAGTT
genomic: TTAGCTCTCCGATGGCGACTGCTCTCACTTCTGATCGTAATCTCCATCAGgttttggttt ... tgatttgcagGAGGATCGAGCCATGCCTCAGCTTCTTACTGAGTT
EST: gi|125272106|gb|EL286191.1|EL286191
EST:     TTAGCTCTCCGATGGCGACTGCTCACACTTCTGATCGTAATCTCCATCAG                         GAGGATCGAGCCATGCCTCAGCT
genomic: TTAGCTCTCCGATGGCGACTGCTCTCACTTCTGATCGTAATCTCCATCAGgttttggttt ... tgatttgcagGAGGATCGAGCCATGCCTCAGCT
EST: gi|124705762|gb|EH797164.1|EH797164
EST:     TTAGCTCTCCGATGGCGACTGCTCTCACTTCTGATCGTAATCTCCATCAG                         GAGGATCGAGCCATGCCTCAGCTTCTT
genomic: TTAGCTCTCCGATGGCGACTGCTCTCACTTCTGATCGTAATCTCCATCAGgttttggttt ... tgatttgcagGAGGATCGAGCCATGCCTCAGCTTCTT
EST: gi|125206919|gb|EL221873.1|EL221873
EST:     TCTCCGATGGCGACTGCTCTCACTTCTGATCGTAATCTCCATCAG                         GAGGATCGAGCCATGCCTCAGCTTCTT
genomic: TCTCCGATGGCGACTGCTCTCACTTCTGATCGTAATCTCCATCAGgttttggttt ... tgatttgcagGAGGATCGAGCCATGCCTCAGCTTCTT
EST: gi|124711089|gb|EH802491.1|EH802491
EST:     CTGATCGTAATCTCCATCAG                         GAGGATCGAGCCATGCCTCAGCTTCTT
genomic: CTGATCGTAATCTCCATCAGgttttggttt ... tgatttgcagGAGGATCGAGCCATGCCTCAGCTTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcgctttcctgattcgatgattaagtatttaagtagctgaatttgatttgcagGAGGATCGAGCCATGCCTCAGCTTCTT
                  atgattaagtatttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttttggtttaaagctttgaacttttgaaataccctatttccaatttgagctttttcgctttcctgattcgatgattaagtatttaagtagctgaatttgatttgcagGAGGATCGAGCCATGCCTCAGCTTCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT