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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatctctcttgaaattagttttcgtactatctttatttaggtttcagatgattaaaactctctgactctgattctgctttcagGTATGTAGTTGATGCTGCTGATCCTGATAACCTCAGTGTCTCGAAGAGTGAACTCCATGATTTGTTGAGCAAGACGTCGCTTAATGGTATCCCTCTCCTA

Basic information

species Arabidopsis thaliana
transcript AT5G67560.1
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|86079865|gb|DR375622.1|DR375622
EST:     ADGTTCCGCAGCATGTGGGAACGTTACTGCCGTTCTGTTTCCGCGATTGT                         GTATGTAGTTGATGCTGCTGATCCTGATAACCTCAGTGTCTCGAAGAGTGA
genomic: AGGTTCCGCAGCATGTGGGAACGTTACTGCCGTTCTGTTTCCGCGATTGTgtaaatctct ... ctgctttcagGTATGTAGTTGATGCTGCTGATCCTGATAACCTCAGTGTCTCGAAGAGTGA
EST: gi|124764615|gb|EH854745.1|EH854745
EST:     GCATGTGGGAACGTTACTGCCGTTCTGTTTCCGCGATTGT                         GTATGTAGTTGATGCTGCTGATCCTGATAACCTCAGTGTCTCGAAGAGTGA
genomic: GCATGTGGGAACGTTACTGCCGTTCTGTTTCCGCGATTGTgtaaatctct ... ctgctttcagGTATGTAGTTGATGCTGCTGATCCTGATAACCTCAGTGTCTCGAAGAGTGA
EST: gi|125145363|gb|EL180560.1|EL180560
EST:     AGGTTCCGCAGCATGTGGGAACGTTACTGCCGTTCTGTTTCCGCGATTGT                         GTATGTAGTTGATGCTG
genomic: AGGTTCCGCAGCATGTGGGAACGTTACTGCCGTTCTGTTTCCGCGATTGTgtaaatctct ... ctgctttcagGTATGTAGTTGATGCTG
EST: gi|125026263|gb|EL098532.1|EL098532
EST:     AGGTTCCGCAGCATGTGGGAACGTTACTGCCGTTCTGTTTCCGCGATTGT                         GTATGTAGTTGATGCTGCTGATCCTGATAACCTCAGTGTCTCG
genomic: AGGTTCCGCAGCATGTGGGAACGTTACTGCCGTTCTGTTTCCGCGATTGTgtaaatctct ... ctgctttcagGTATGTAGTTGATGCTGCTGATCCTGATAACCTCAGTGTCTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctttatttaggtttcagatgattaaaactctctgactctgattctgctttcagGTATGTAGTTGATGCTGCTGATCCTGATAACCTCAGTGTCTCGAAGAGTGAACTCCATGATTTGTTGAGCAAGACGTCGCTTAATGGTATCCCTCTCCTA
                                           ttctgctttc  CT-rich tract
                   atgattaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaatctctcttgaaattagttttcgtactatctttatttaggtttcagatgattaaaactctctgactctgattctgctttcagGTATGTAGTTGATGCTGCTGATCCTGATAACCTCAGTGTCTCGAAGAGTGAACTCCATGATTTGTTGAGCAAGACGTCGCTTAATGGTATCCCTCTCCTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA