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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACTGTGTAAAGCAGACTTTATCAAGCAAAGGAAAATATGTGTCGGTGAATATTGGCCCTATCCAAGTCGTCTCTAGTGAGCAGgtttttcccttttccctccttccctctctctcccacacacatacacatatgaaaatccatatgggtttataggcacaagaagcatagagaatcaaaccttatttacagagaggatgtgagaaagttaggagttgaaaattaatgtgatgagaatttgtgttgtttggtttgacag

Basic information

species Arabidopsis thaliana
transcript AT1G27385.1
intron # 4
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|124949423|gb|EL025026.1|EL025026
EST:     AATATGTGTCGGTGAATATTGGCCCTATCCAAGTCGTCTCTAGTGAGCAG                         GTTCAAGCTGTGTATAATGCAATGAGGAGAGACGAAAGAA
genomic: AATATGTGTCGGTGAATATTGGCCCTATCCAAGTCGTCTCTAGTGAGCAGgtttttccct ... ggtttgacagGTTCAAGCTGTGTATAATGCAATGAGGAGAGACGAAAGAA
EST: gi|86080659|gb|DR376416.1|DR376416
EST:     AATATGTGTCGGTGAATATTGGCCCTATCCAAGTCGTCTCTAGTGAGCAG                         GTTCAAGCTGTGTATAATGCAATGAGGAGAGACGAAAGAATGAAATACTTC
genomic: AATATGTGTCGGTGAATATTGGCCCTATCCAAGTCGTCTCTAGTGAGCAGgtttttccct ... ggtttgacagGTTCAAGCTGTGTATAATGCAATGAGGAGAGACGAAAGAATGAAATACTTC
EST: gi|301503145|gb|HO208685.1|HO208685
EST:     AATATGTGTCGGTGAATATTGGCCCTATCCAAGTCGTCTCTAGTGAGCAG                         GTTCAAGCTGTGTATAATGC
genomic: AATATGTGTCGGTGAATATTGGCCCTATCCAAGTCGTCTCTAGTGAGCAGgtttttccct ... ggtttgacagGTTCAAGCTGTGTATAATGC
EST: gi|125248602|gb|EL262687.1|EL262687
EST:     GTCGGTGAATATTGGCCCTATCCAAGTCGTCTCTAGTGAGCAG                         GTTCAAGCTGTGTATAATGCAATGAGGAGAGACGAAAGAATGAAATACTT
genomic: GTCGGTGAATATTGGCCCTATCCAAGTCGTCTCTAGTGAGCAGgtttttccct ... ggtttgacagGTTCAAGCTGTGTATAATGCAATGAGGAGAGACGAAAGAATGAAATACTT
EST: gi|19742694|gb|AU228047.1|AU228047
EST:     AATATGTGTCGGTGAATATTGGCCCTATCCAAGTCGTCTCTAGTGAGCAG                         GTTCAAGCTGTGTATAATGCAATGAGGAGAGACGAAAGAATGAAATACTTC
genomic: AATATGTGTCGGTGAATATTGGCCCTATCCAAGTCGTCTCTAGTGAGCAGgtttttccct ... ggtttgacagGTTCAAGCTGTGTATAATGCAATGAGGAGAGACGAAAGAATGAAATACTTC
EST: gi|19876202|gb|AU237033.1|AU237033
EST:     ATATGTGTCGGTGAATATTGGCCCTATCCAAGTCGTCTCTAGTGAGCCAG                         GTTCAAGCTGTGTTTA-TGCAATGAGGAGAGACNAAAGAATGAAANACTT
genomic: ATATGTGTCGGTGAATATTGGCCCTATCCAAGTCGTCTCTAGTGAGC-AGgtttttccct ... ggtttgacagGTTCAAGCTGTGTATAATGCAATGAGGAGAGACGAAAGAATGAAATACTT
EST: gi|86079028|gb|DR374785.1|DR374785
EST:     AATATGTGTCGGTGAATATTGGCCCTATCCAAGTCGTCTCTAGTGAGCAG                         GTTCAAGCTGTGTATAATGCAATGAGGAGAGACGAAAGAATGAAATACTTC
genomic: AATATGTGTCGGTGAATATTGGCCCTATCCAAGTCGTCTCTAGTGAGCAGgtttttccct ... ggtttgacagGTTCAAGCTGTGTATAATGCAATGAGGAGAGACGAAAGAATGAAATACTTC
EST: gi|19798774|gb|AU230064.1|AU230064
EST:     ATATGTGGTCGGTGAATATTGGCCCTATCCAAGTCGTCTCTAGTGAGCA-                         GTTCAAGCTGTGTATAATGCAATGAGGAGAGACGAAAGAATGAAATACTTC
genomic: ATATGT-GTCGGTGAATATTGGCCCTATCCAAGTCGTCTCTAGTGAGCAGgtttttccct ... ggtttgacagGTTCAAGCTGTGTATAATGCAATGAGGAGAGACGAAAGAATGAAATACTTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACTGTGTAAAGCAGACTTTATCAAGCAAAGGAAAATATGTGTCGGTGAATATTGGCCCTATCCAAGTCGTCTCTAGTGAGCAGgtttttcccttttccctccttccctctctctcccacacacatacacatatgaaaatccatatgggtttataggcacaagaagcatagagaatcaaaccttatttacagagaggatgtgagaaagttaggagttgaaaattaatgtgatgagaatttgtgttgtttggtttgacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG