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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccgtctacaattgctcggtttggtatctatcagtgccaatgatttgtttgaattagatcattgagaagctaacttttctgattttgaatcacagCTTCATGGTGTGGATGACGCCATTGACAAGAGCAAGAAGGTGTTGACGGCTATGTCAAGGAGAATGACTAGGAACAAATGGATCATTACATCGGTAATCG

Basic information

species Arabidopsis thaliana
transcript AT1G26670.1
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|164217240|gb|ES147326.1|ES147326
EST:     TCCAAGATTTGAGTCAGCAACGCCAAACCCTCCTTCATGCGCACAACAAG                         CTTCATGGTGTGGATGACGCC
genomic: TCCAAGATTTGAGTCAGCAACGCCAAACCCTCCTTCATGCGCACAACAAGgtaccgtcta ... tgaatcacagCTTCATGGTGTGGATGACGCC
EST: gi|116443661|gb|EG486253.1|EG486253
EST:     TCCAAGATTTGAGTCAGCAACGCCAAACCCTCCTTCATGCGCACAACAAG                         CTTCATGGTGTGGATGACGCCATTGACAAGAGC
genomic: TCCAAGATTTGAGTCAGCAACGCCAAACCCTCCTTCATGCGCACAACAAGgtaccgtcta ... tgaatcacagCTTCATGGTGTGGATGACGCCATTGACAAGAGC
EST: gi|164045954|gb|ES149601.1|ES149601
EST:     CCAAGATTTGAGTCAGCAACGCCTAAACCCTCCTTCATGCGCACAACAAG                         CTTCATGGTGTGGATGACGCC
genomic: CCAAGATTTGAGTCAGCAACGCC-AAACCCTCCTTCATGCGCACAACAAGgtaccgtcta ... tgaatcacagCTTCATGGTGTGGATGACGCC
EST: gi|116443658|gb|EG486250.1|EG486250
EST:     TCCAAGATTTGAGTCAGCAACGCCAAACCCTCCTTCATGCGCACAACAAG                         CTTCATGGTGTGGATGACGCCATTGACAAGAGCAAGAAGGTGTTGACGGCT
genomic: TCCAAGATTTGAGTCAGCAACGCCAAACCCTCCTTCATGCGCACAACAAGgtaccgtcta ... tgaatcacagCTTCATGGTGTGGATGACGCCATTGACAAGAGCAAGAAGGTGTTGACGGCT
EST: gi|125201954|gb|EL216908.1|EL216908
EST:     CCAAACCCTCCTTCATGCGCACAACAAG                         CTTCATGGTGTGGATGACGCCATTGACAAGAGCAAGAAGGTGTTGACGGCT
genomic: CCAAACCCTCCTTCATGCGCACAACAAGgtaccgtcta ... tgaatcacagCTTCATGGTGTGGATGACGCCATTGACAAGAGCAAGAAGGTGTTGACGGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatttgtttgaattagatcattgagaagctaacttttctgattttgaatcacagCTTCATGGTGTGGATGACGCCATTGACAAGAGCAAGAAGGTGTTGACGGCTATGTCAAGGAGAATGACTAGGAACAAATGGATCATTACATCGGTAATCG
       tttgaatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaccgtctacaattgctcggtttggtatctatcagtgccaatgatttgtttgaattagatcattgagaagctaacttttctgattttgaatcacagCTTCATGGTGTGGATGACGCCATTGACAAGAGCAAGAAGGTGTTGACGGCTATGTCAAGGAGAATGACTAGGAACAAATGGATCATTACATCGGTAATCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA