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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgaaacataatttatactttataactatgctcatcagtcattctctgtctctttctttttttgtttccgtttgggtataacaatagcctcatggttttttctattaatactccagCTTGGTGAATGAATCCCTTAAGTTCTTGACGAAGTACCTAGCAACTTTCTCCAATGAGGATGCTCAGGTCCTGGATGAAGCCAAGGAGGAGGCTGTGCGT

Basic information

species Arabidopsis thaliana
transcript AT3G02200.2
intron # 4
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|86045217|gb|DR340972.1|DR340972
EST:     CAGAGGGAACTCTTTCTTGCCATTGCTAATGTGCTGAAAGAAAACAAAAG                         CTTGGTGAATGAATCCCTTAAGTTCTTGACGAAGTACCTAGCAACTTTCTC
genomic: CAGAGGGAACTCTTTCTTGCCATTGCTAATGTGCTGAAAGAAAACAAAAGgtattgaaac ... aatactccagCTTGGTGAATGAATCCCTTAAGTTCTTGACGAAGTACCTAGCAACTTTCTC
EST: gi|86045196|gb|DR340951.1|DR340951
EST:     CAGAGGGAACTCTTTCTTGCCATTGCTAATGTGCTGAAAGAAAACAAAAG                         CTTGGTGAATGAAATCCCTTA
genomic: CAGAGGGAACTCTTTCTTGCCATTGCTAATGTGCTGAAAGAAAACAAAAGgtattgaaac ... aatactccagCTTGGTGAATGAA-TCCCTTA
EST: gi|86045213|gb|DR340968.1|DR340968
EST:     CAGAGGGAACTCTTTCTTGCCATTGCTAATGTGCTGAAAGAAAACAAAAG                         CTTGGTGAATGAATCCCTTAAGTTCTTGACGAAGTACCTAGCAACTTTCTC
genomic: CAGAGGGAACTCTTTCTTGCCATTGCTAATGTGCTGAAAGAAAACAAAAGgtattgaaac ... aatactccagCTTGGTGAATGAATCCCTTAAGTTCTTGACGAAGTACCTAGCAACTTTCTC
EST: gi|164182669|gb|ES055244.1|ES055244
EST:     CAGAGGGAACTCTTTCTTGCCATTGCTAATGTGCTGAAAGAAAACAAAAG                         CTTGGTGAATGAATCCCTTAAGTTCTTGACGAAGTACCTAGC
genomic: CAGAGGGAACTCTTTCTTGCCATTGCTAATGTGCTGAAAGAAAACAAAAGgtattgaaac ... aatactccagCTTGGTGAATGAATCCCTTAAGTTCTTGACGAAGTACCTAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtttccgtttgggtataacaatagcctcatggttttttctattaatactccagCTTGGTGAATGAATCCCTTAAGTTCTTGACGAAGTACCTAGCAACTTTCTCCAATGAGGATGCTCAGGTCCTGGATGAAGCCAAGGAGGAGGCTGTGCGT
                                         tattaat  putative branch site (score: 2)
                                  ttttttctattaatac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattgaaacataatttatactttataactatgctcatcagtcattctctgtctctttctttttttgtttccgtttgggtataacaatagcctcatggttttttctattaatactccagCTTGGTGAATGAATCCCTTAAGTTCTTGACGAAGTACCTAGCAACTTTCTCCAATGAGGATGCTCAGGTCCTGGATGAAGCCAAGGAGGAGGCTGTGCGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG