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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgtcttattaacttctgtcagacttcatctcaagtatgttactttgtacttagttttttcttgtttttgcagGTGTACATAGACTCTACTAATGTCGATGACTACCTCGTCGAATCCATTTCAAAACCTGCAACAGATCCAAATGCTGGAGAAGTATACTACAG

Basic information

species Arabidopsis thaliana
transcript AT4G36530.1
intron # 6
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|125231586|gb|EL245671.1|EL245671
EST:     CAAGCCAAGCAACCTTCTCGAATCGAATCTGTCTTAAAGAGT                         GTGTACATAGACTCTACTAATGTCGATGACTACCTCGTCGAATCCATTTCA
genomic: CAAGCCAAGCAACCTTCTCGAATCGAATCTGTCTTAAAGAGTgtaatgtctt ... gtttttgcagGTGTACATAGACTCTACTAATGTCGATGACTACCTCGTCGAATCCATTTCA
EST: gi|124756566|gb|EH846696.1|EH846696
EST:     GTTCTGGCAAGCCAAGCAACCTTCTCGAATCGAATCTGTCTTAAAGAGT                         GTGTACATAGACTCTACTAATGTCGATGACTACCTCGTCGAATCCATTTCA
genomic: GTTCTGGCAAGCCAAGCAACCTTCTCGAATCGAATCTGTCTTAAAGAGTgtaatgtctt ... gtttttgcagGTGTACATAGACTCTACTAATGTCGATGACTACCTCGTCGAATCCATTTCA
EST: gi|86080076|gb|DR375833.1|DR375833
EST:     TGTTCTGGCAAGCCAAGCAACCTTCTCGAATCGAATCTGTCTTAAAGAGT                         GTGTACATAGACTCTACTAATGTCGATGACTACCTCGTCGAATCCATTTCA
genomic: TGTTCTGGCAAGCCAAGCAACCTTCTCGAATCGAATCTGTCTTAAAGAGTgtaatgtctt ... gtttttgcagGTGTACATAGACTCTACTAATGTCGATGACTACCTCGTCGAATCCATTTCA
EST: gi|125096674|gb|EL153392.1|EL153392
EST:     TGTTCTGGCAAGCCAAGCAACCTTCTCGAATCGAATCTGTCTTAAAGAGT                         GTGTACATAGACTCTACTAATGTCGATGA
genomic: TGTTCTGGCAAGCCAAGCAACCTTCTCGAATCGAATCTGTCTTAAAGAGTgtaatgtctt ... gtttttgcagGTGTACATAGACTCTACTAATGTCGATGA
EST: gi|124958133|gb|EL032901.1|EL032901
EST:     TGTTCTGGCAAGCCAAGCAACCTTCTCGAATCGAATCTGTCTTAAAGAGT                         GTGTACATAGACTCTACTAATGTCGATGACTACCTCGTCGAATCCA
genomic: TGTTCTGGCAAGCCAAGCAACCTTCTCGAATCGAATCTGTCTTAAAGAGTgtaatgtctt ... gtttttgcagGTGTACATAGACTCTACTAATGTCGATGACTACCTCGTCGAATCCA
EST: gi|125103297|gb|EL157758.1|EL157758
EST:     CGAATCTGTCTTAAAGAGT                         GTGTACATAGACTCTACTAATGTCGATGACTACCTCGTCGAATCCATTTCA
genomic: CGAATCTGTCTTAAAGAGTgtaatgtctt ... gtttttgcagGTGTACATAGACTCTACTAATGTCGATGACTACCTCGTCGAATCCATTTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagacttcatctcaagtatgttactttgtacttagttttttcttgtttttgcagGTGTACATAGACTCTACTAATGTCGATGACTACCTCGTCGAATCCATTTCAAAACCTGCAACAGATCCAAATGCTGGAGAAGTATACTACAG
                                    ttttttcttgtttttg  CT-rich tract
                                    ttttttcttgttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatgtcttattaacttctgtcagacttcatctcaagtatgttactttgtacttagttttttcttgtttttgcagGTGTACATAGACTCTACTAATGTCGATGACTACCTCGTCGAATCCATTTCAAAACCTGCAACAGATCCAAATGCTGGAGAAGTATACTACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT