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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGTTTCTCAGTGAGAAAATGGCTTCGAAACGGATCTTGAAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAGgttcacttcaaaaatctcaaatctttctccttcttgttggatccattactttatctatgattatctggtaatatgccagagatttagcattctagagatc...

Basic information

species Arabidopsis thaliana
transcript AT5G41700.3
intron # 2
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|124774097|gb|EH864226.1|EH864226
EST:     GAAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAG                         GTCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTA
genomic: GAAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAGgttcacttca ... gtttttgcagGTCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTA
EST: gi|125039096|gb|EL111365.1|EL111365
EST:     GAAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAG                         GTCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTA
genomic: GAAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAGgttcacttca ... gtttttgcagGTCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTA
EST: gi|125321542|gb|EL335627.1|EL335627
EST:     TCCAGAAAGACCCTCCAACCTCCTGCAGTGCAG                         GTCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTACAATTATGGGTCCTG
genomic: TCCAGAAAGACCCTCCAACCTCCTGCAGTGCAGgttcacttca ... gtttttgcagGTCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTACAATTATGGGTCCTG
EST: gi|86027897|gb|DR323650.1|DR323650
EST:     GAAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAG                         -TCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTACAATTATGGGTCCTG
genomic: GAAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAGgttcacttca ... gtttttgcagGTCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTACAATTATGGGTCCTG
EST: gi|86027888|gb|DR323641.1|DR323641
EST:     GAAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTACAGTGCAG                         GTCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTACAATTATGGGTCCTG
genomic: GAAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAGgttcacttca ... gtttttgcagGTCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTACAATTATGGGTCCTG
EST: gi|125041918|gb|EL114187.1|EL114187
EST:     CTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAG                         GTCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTACAATTATGGGTCCTG
genomic: CTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAGgttcacttca ... gtttttgcagGTCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTACAATTATGGGTCCTG
EST: gi|86027910|gb|DR323663.1|DR323663
EST:     GAAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAG                         -TCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTACAATTATGGGTCCTG
genomic: GAAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAGgttcacttca ... gtttttgcagGTCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTACAATTATGGGTCCTG
EST: gi|124954543|gb|EL029628.1|EL029628
EST:     TCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAG                         GTCCAGTTGCTGAAGACATGTTTCATTGGCAAG
genomic: TCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAGgttcacttca ... gtttttgcagGTCCAGTTGCTGAAGACATGTTTCATTGGCAAG
EST: gi|124925884|gb|EL003809.1|EL003809
EST:     AAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAG                         GTCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTACAATTATG
genomic: AAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAGgttcacttca ... gtttttgcagGTCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTACAATTATG
EST: gi|125280106|gb|EL294191.1|EL294191
EST:     AAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTAGCAGTGCAG                         GTCCTGTTGCTG
genomic: AAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCT-GCAGTGCAGgttcacttca ... gtttttgcagGTCCAGTTGCTG
EST: gi|86027892|gb|DR323645.1|DR323645
EST:     GAAGTAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCA-                         GTCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTACAATTATGGGTCCTG
genomic: GAAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAGgttcacttca ... gtttttgcagGTCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTACAATTATGGGTCCTG
EST: gi|86027906|gb|DR323659.1|DR323659
EST:     GAAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAG                         -TCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTACAATTATGGGTCCTG
genomic: GAAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAGgttcacttca ... gtttttgcagGTCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTACAATTATGGGTCCTG
EST: gi|86027893|gb|DR323646.1|DR323646
EST:     GAAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAG                         -TCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTACAATTATGGGTCCTG
genomic: GAAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAGgttcacttca ... gtttttgcagGTCCAGTTGCTGAAGACATGTTTCATTGGCAAGCTACAATTATGGGTCCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGGTTTCTCAGTGAGAAAATGGCTTCGAAACGGATCTTGAAGGAGCTGAAGGATCTCCAGAAAGACCCTCCAACCTCCTGCAGTGCAGgttcacttcaaaaatctcaaatctttctccttcttgttggatccattactttatctatgattatctggtaatatgccagagatttagcattctagagatc

- - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaaaatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctttctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctttatct