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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCACGCTGTTGAATCACTGAAGAGAGAAAGCTTGAAGACGGCGAGAGCTCCATCTTTTCTCAGGCATCTCTTATCTTCAAATCACAATGgtaattagggtttacgctttcgtttctctcgtcttagtctcttccccaacaactactatatgttacttcgctttcctgattccgatcgatctagaacagt...

Basic information

species Arabidopsis thaliana
transcript AT1G34030.1
intron # 1
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|164214510|gb|ES169423.1|ES169423
EST:     GCGAGAGCTCCAATCTTTTCTCAGGCATCTCTTATCTTCAAATCACAATG                         TCTCTGGTTGCAAATGAGGAGTTTCAGCACA
genomic: GCGAGAGCTCC-ATCTTTTCTCAGGCATCTCTTATCTTCAAATCACAATGgtaattaggg ... ctgcatgtagTCTCTGGTTGCAAATGAGGAGTTTCAGCACA
EST: gi|124868181|gb|EH952618.1|EH952618
EST:     TTTTCTCAGGCATCTCTTATCTTCAAATCACAATG                         TCTCTGGTTGCAAATGAGGAGTTTCAGCACATTTTGCGTGTGCTCAACACT
genomic: TTTTCTCAGGCATCTCTTATCTTCAAATCACAATGgtaattaggg ... ctgcatgtagTCTCTGGTTGCAAATGAGGAGTTTCAGCACATTTTGCGTGTGCTCAACACT
EST: gi|116468457|gb|EG511049.1|EG511049
EST:     GGCGAGAGCTCCATCTTTTCTCAGGCATCTCTTATCTTCAAATCACAATG                         TCTCTGGTTGCAAATGAGGAGTTTCAGCACATTTTGCGTGTGC
genomic: GGCGAGAGCTCCATCTTTTCTCAGGCATCTCTTATCTTCAAATCACAATGgtaattaggg ... ctgcatgtagTCTCTGGTTGCAAATGAGGAGTTTCAGCACATTTTGCGTGTGC
EST: gi|125254377|gb|EL268462.1|EL268462
EST:     CATCTCTTATCTTCAAATCACAATG                         TCTCTGGTTGCAAATGAGGAGTTTCAGCACATTTTGCGTGTGCTCAACACT
genomic: CATCTCTTATCTTCAAATCACAATGgtaattaggg ... ctgcatgtagTCTCTGGTTGCAAATGAGGAGTTTCAGCACATTTTGCGTGTGCTCAACACT
EST: gi|125224093|gb|EL238178.1|EL238178
EST:     GGCGAGAGCTCCATCTTTTCTCAGGCATCTCTTATCTTCAAATCACAATG                         TCTCTGGTTGCAAATGAGGAGTTTCAGCACATTTTGCGT
genomic: GGCGAGAGCTCCATCTTTTCTCAGGCATCTCTTATCTTCAAATCACAATGgtaattaggg ... ctgcatgtagTCTCTGGTTGCAAATGAGGAGTTTCAGCACATTTTGCGT
EST: gi|125274042|gb|EL288127.1|EL288127
EST:     TCTTTTCTCAGGCATCTCTTATCTTCAAATCACAATG                         TCTCTGGTTGCAAATGAGGAGTTTCAGCACATTTTGCGTGTGCTCAAC
genomic: TCTTTTCTCAGGCATCTCTTATCTTCAAATCACAATGgtaattaggg ... ctgcatgtagTCTCTGGTTGCAAATGAGGAGTTTCAGCACATTTTGCGTGTGCTCAAC
EST: gi|86081156|gb|DR376913.1|DR376913
EST:     CTTTTCTCAGGCATCTCGTATCTTCAAATCACAATG                         TCTCT-GKTGCAAATGAGGAGTTTCAGCACATTTTGCGTGTGCTCANACAC
genomic: CTTTTCTCAGGCATCTCTTATCTTCAAATCACAATGgtaattaggg ... ctgcatgtagTCTCTGGTTGCAAATGAGGAGTTTCAGCACATTTTGCGTGTGCTCA-ACAC
EST: gi|124709017|gb|EH800419.1|EH800419
EST:     CAAATCACAATG                         TCTCTGGTTGCAAATGAGGAGTTTCAGCACATTTTGCGTGTGCTCAACACT
genomic: CAAATCACAATGgtaattaggg ... ctgcatgtagTCTCTGGTTGCAAATGAGGAGTTTCAGCACATTTTGCGTGTGCTCAACACT
EST: gi|124888919|gb|EH967821.1|EH967821
EST:     GGCGAGAGCTCCATCTTTTCTCAGGCATCTCTTATCTTCAAATCACAATG                         TCTCTGGTTGCAAATGAGGAGTTTCAGCACATTTTGCGTG
genomic: GGCGAGAGCTCCATCTTTTCTCAGGCATCTCTTATCTTCAAATCACAATGgtaattaggg ... ctgcatgtagTCTCTGGTTGCAAATGAGGAGTTTCAGCACATTTTGCGTG
EST: gi|47827960|gb|CK117644.1|CK117644
EST:     GGCGAGAGCTCCATCTTTTCTCAGGCATCTCTTATCTTCAAATCACAATG                         TCTCTGGTTGCAAATGAGGAGTTTCAGCACATTTTGCGTGTGCTCAACACT
genomic: GGCGAGAGCTCCATCTTTTCTCAGGCATCTCTTATCTTCAAATCACAATGgtaattaggg ... ctgcatgtagTCTCTGGTTGCAAATGAGGAGTTTCAGCACATTTTGCGTGTGCTCAACACT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTCACGCTGTTGAATCACTGAAGAGAGAAAGCTTGAAGACGGCGAGAGCTCCATCTTTTCTCAGGCATCTCTTATCTTCAAATCACAATGgtaattagggtttacgctttcgtttctctcgtcttagtctcttccccaacaactactatatgttacttcgctttcctgattccgatcgatctagaacagt

- - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cgctttcg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctctcg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctcttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cgctttcc