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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATAGATGATTTTGCTGCTACGTTTGGCATAACGAGGCATTCATTGCTGGAGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAGgtatcttttggcattcccaaggaaaacttatagaaacgtgtattttattgtgccatacatttattaattggtgtagcttacaaactttccaaattatatttcag

Basic information

species Arabidopsis thaliana
transcript AT2G39810.1
intron # 6
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|116394356|gb|EG436948.1|EG436948
EST:     AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAG                         GAAGCTTGTAGGATTCTACCTGAAATATGCGGTCCAGAAACCTACCCCAAA
genomic: AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAGgtatcttttg ... tatatttcagGAAGCTTGTAGGATTCTACCTGAAATATGCGGTCCAGAAACCTACCCCAAA
EST: gi|116394349|gb|EG436941.1|EG436941
EST:     AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAG                         GAAGCTTGTAGGATTCTACCTGAAATATGCGGTCC
genomic: AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAGgtatcttttg ... tatatttcagGAAGCTTGTAGGATTCTACCTGAAATATGCGGTCC
EST: gi|116394360|gb|EG436952.1|EG436952
EST:     AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAG                         GAAGCTTGTAGGATTCTACCTGAAATATGCGGTCCAGAAACCTACCCCAAA
genomic: AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAGgtatcttttg ... tatatttcagGAAGCTTGTAGGATTCTACCTGAAATATGCGGTCCAGAAACCTACCCCAAA
EST: gi|116394351|gb|EG436943.1|EG436943
EST:     AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAG                         GAAGCCTGTAGGATTCTACCTGAAATATGCG
genomic: AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAGgtatcttttg ... tatatttcagGAAGCTTGTAGGATTCTACCTGAAATATGCG
EST: gi|116394343|gb|EG436935.1|EG436935
EST:     AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAG                         GAAGCTTGTAGGATTCTACCTGAAATATGCGGTCC
genomic: AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAGgtatcttttg ... tatatttcagGAAGCTTGTAGGATTCTACCTGAAATATGCGGTCC
EST: gi|116394324|gb|EG436916.1|EG436916
EST:     AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAG                         GAAGCTTGTAGGATTCTACCTGAAATATGCGGTCC
genomic: AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAGgtatcttttg ... tatatttcagGAAGCTTGTAGGATTCTACCTGAAATATGCGGTCC
EST: gi|116394358|gb|EG436950.1|EG436950
EST:     AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAG                         GAAGCTTGTAGGATTCTACCTGAAATATGCGGTCCAGAAACCTACCCCAAA
genomic: AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAGgtatcttttg ... tatatttcagGAAGCTTGTAGGATTCTACCTGAAATATGCGGTCCAGAAACCTACCCCAAA
EST: gi|116394335|gb|EG436927.1|EG436927
EST:     AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAG                         GAAGCTTGTAGGATTCTACCTGAAATATGCGGTCC
genomic: AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAGgtatcttttg ... tatatttcagGAAGCTTGTAGGATTCTACCTGAAATATGCGGTCC
EST: gi|116394353|gb|EG436945.1|EG436945
EST:     AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAG                         GAAGCTTGTAGGATTCTACCTGAAATATGCGGTCC
genomic: AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAGgtatcttttg ... tatatttcagGAAGCTTGTAGGATTCTACCTGAAATATGCGGTCC
EST: gi|116394329|gb|EG436921.1|EG436921
EST:     AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAG                         GAAGCTTGTAGGATTCTACCTGAAATATGCG
genomic: AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAGgtatcttttg ... tatatttcagGAAGCTTGTAGGATTCTACCTGAAATATGCG
EST: gi|116394341|gb|EG436933.1|EG436933
EST:     AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAG                         GAAGCTTGTAGGATTCTACCTGAAATATGCGGTCC
genomic: AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAGgtatcttttg ... tatatttcagGAAGCTTGTAGGATTCTACCTGAAATATGCGGTCC
EST: gi|116394326|gb|EG436918.1|EG436918
EST:     AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAG                         GAAGCTTGTAGGATTCTACCTGAAATATGCGGTCCAGAAACCTACCCCAAA
genomic: AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAGgtatcttttg ... tatatttcagGAAGCTTGTAGGATTCTACCTGAAATATGCGGTCCAGAAACCTACCCCAAA
EST: gi|116394344|gb|EG436936.1|EG436936
EST:     AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAG                         GAAGCTTGTAGGATTCTACCTGAAATATGCGGTCC
genomic: AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAGgtatcttttg ... tatatttcagGAAGCTTGTAGGATTCTACCTGAAATATGCGGTCC
EST: gi|116394330|gb|EG436922.1|EG436922
EST:     AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAG                         GAAGCTTGTAGGATTCTGCCTGAAATATG
genomic: AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAGgtatcttttg ... tatatttcagGAAGCTTGTAGGATTCTACCTGAAATATG
EST: gi|116394361|gb|EG436953.1|EG436953
EST:     AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAG                         GAAGCTTGTAGGATTCTACCTGAAATATGCGGTCC
genomic: AGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAGgtatcttttg ... tatatttcagGAAGCTTGTAGGATTCTACCTGAAATATGCGGTCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATAGATGATTTTGCTGCTACGTTTGGCATAACGAGGCATTCATTGCTGGAGTCTTTTGTATTTTATCTTCTCGATGATCACTCAGAGGAGGCACTCCAGgtatcttttggcattcccaaggaaaacttatagaaacgtgtattttattgtgccatacatttattaattggtgtagcttacaaactttccaaattatatttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG