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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACCACCAAGACTAAGAGACAAAACAAGCCTAAGCTCTCTGTTAACAAGTCTATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCAATCAGgtactactcatcttcttaagatcaatgtttgtttgctttatctgcggttatacatgttgggttatttggaaaatcttacggataagtgctttagtgaatt...

Basic information

species Arabidopsis thaliana
transcript AT4G29410.1
intron # 3
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|164137274|gb|ES025775.1|ES025775
EST:     GTAAAGTTGTTGCCAATCAG                         GTAGTGGACAACTACTACAGGCCTGATTTGAAGAAAGCAGCACTTGCTAGG
genomic: GTAAAGTTGTTGCCAATCAGgtactactca ... aacttttcagGTAGTGGACAACTACTACAGGCCTGATTTGAAGAAAGCAGCACTTGCTAGG
EST: gi|116457661|gb|EG500253.1|EG500253
EST:     CTATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCAATCAG                         GTAGTGGACAACTACTACAGGCCTGATTTGAAGAAAGCAGCACTTGCTAGG
genomic: CTATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCAATCAGgtactactca ... aacttttcagGTAGTGGACAACTACTACAGGCCTGATTTGAAGAAAGCAGCACTTGCTAGG
EST: gi|124950479|gb|EL025940.1|EL025940
EST:     CGAGGATGAGTAAAGTTGTTGCCAATCAG                         GTAGTGGACAACTACTACAGGCCTGATTTGAAGAAAGCAGCACTTGCTAGG
genomic: CGAGGATGAGTAAAGTTGTTGCCAATCAGgtactactca ... aacttttcagGTAGTGGACAACTACTACAGGCCTGATTTGAAGAAAGCAGCACTTGCTAGG
EST: gi|116457666|gb|EG500258.1|EG500258
EST:     CTATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCAATCAG                         GTAGTGGACAACTACTACAGGCCTGATTTGAAGAAAGCAGCACTTGCTAGG
genomic: CTATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCAATCAGgtactactca ... aacttttcagGTAGTGGACAACTACTACAGGCCTGATTTGAAGAAAGCAGCACTTGCTAGG
EST: gi|116457664|gb|EG500256.1|EG500256
EST:     CTATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCAATCAG                         GTAGTGGACAACTACTACAGGCCTGATTTGAAGAAAGCAGCACTTGCTAGG
genomic: CTATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCAATCAGgtactactca ... aacttttcagGTAGTGGACAACTACTACAGGCCTGATTTGAAGAAAGCAGCACTTGCTAGG
EST: gi|86075084|gb|DR370841.1|DR370841
EST:     CTATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCAATCAG                         GTAGTGGACAACTACTACAGGCCTGATTTGAAGAAAGCAGCACTTGCTAGG
genomic: CTATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCAATCAGgtactactca ... aacttttcagGTAGTGGACAACTACTACAGGCCTGATTTGAAGAAAGCAGCACTTGCTAGG
EST: gi|116457662|gb|EG500254.1|EG500254
EST:     CTATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCAATCAG                         GTAGTGGACAACTACTACAGACCTGATTTGAAGAAAGCAGCACTTGCTAGG
genomic: CTATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCAATCAGgtactactca ... aacttttcagGTAGTGGACAACTACTACAGGCCTGATTTGAAGAAAGCAGCACTTGCTAGG
EST: gi|164130572|gb|ES046378.1|ES046378
EST:     TATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCCAATCAG                         GTAGTGGACAACTACTACAGG
genomic: TATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCC-AATCAGgtactactca ... aacttttcagGTAGTGGACAACTACTACAGG
EST: gi|152038437|gb|AV822896.2|AV822896
EST:     CTATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCAATCAG                         GTAGTGGACAACTACTACAGGCCTGATTTGAAGAAAGCAGCACTTGCTAGG
genomic: CTATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCAATCAGgtactactca ... aacttttcagGTAGTGGACAACTACTACAGGCCTGATTTGAAGAAAGCAGCACTTGCTAGG
EST: gi|116457663|gb|EG500255.1|EG500255
EST:     CTATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCAATCAG                         GTAGTGGACAACTACTACAGACCTGATTTGAAGAAAGCAGCACTTGCTAGG
genomic: CTATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCAATCAGgtactactca ... aacttttcagGTAGTGGACAACTACTACAGGCCTGATTTGAAGAAAGCAGCACTTGCTAGG
EST: gi|116457659|gb|EG500251.1|EG500251
EST:     CTATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCAATCAG                         GTAGTGGACAACTACTACAGGCCTGATTTGAAGAAAGCAGCACTTGCTAGG
genomic: CTATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCAATCAGgtactactca ... aacttttcagGTAGTGGACAACTACTACAGGCCTGATTTGAAGAAAGCAGCACTTGCTAGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACCACCAAGACTAAGAGACAAAACAAGCCTAAGCTCTCTGTTAACAAGTCTATCCTCAAGAAGGAGTTCTCGAGGATGAGTAAAGTTGTTGCCAATCAGgtactactcatcttcttaagatcaatgtttgtttgctttatctgcggttatacatgttgggttatttggaaaatcttacggataagtgctttagtgaatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctttatct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggaaaat