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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtgtttcccaaaatacaagaaaactattttggttacatcactgatctctcatttgaatccaactcattatcattgcagTTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG

Basic information

species Arabidopsis thaliana
transcript AT4G25070.2
intron # 2
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|116426396|gb|EG468988.1|EG468988
EST:     ACTCTAACCAGCAGGAAGATGATCGAGAAGCTTCAGCCCTGCGTGATGAA                         TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG
genomic: ACTCTAACCAGCAGGAAGATGATCGAGAAGCTTCAGCCCTGCGTGATGAAgtaggtgttt ... atcattgcagTTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG
EST: gi|116426404|gb|EG468996.1|EG468996
EST:     ACTCTAACCAGCAGGAAGATGATCGAGAAGCTTCAGCCCTGCGTGATGAA                         TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG
genomic: ACTCTAACCAGCAGGAAGATGATCGAGAAGCTTCAGCCCTGCGTGATGAAgtaggtgttt ... atcattgcagTTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG
EST: gi|116426393|gb|EG468985.1|EG468985
EST:     ACTCTAACCAGCAGGAAGATGATCGAGAAGCTTCAGCCCTGCGTGGTGAA                         TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGACAAG
genomic: ACTCTAACCAGCAGGAAGATGATCGAGAAGCTTCAGCCCTGCGTGATGAAgtaggtgttt ... atcattgcagTTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG
EST: gi|116426400|gb|EG468992.1|EG468992
EST:     ACTCTAACCAGCAGGAAGATGATCGAGAAGCTTCAGCCCTGCGTGATGAA                         TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG
genomic: ACTCTAACCAGCAGGAAGATGATCGAGAAGCTTCAGCCCTGCGTGATGAAgtaggtgttt ... atcattgcagTTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG
EST: gi|116426401|gb|EG468993.1|EG468993
EST:     ACTCTAACCAGCAGGAAGATGATCGAGAAGCTTCAGCCCTGCGTGATGAA                         TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG
genomic: ACTCTAACCAGCAGGAAGATGATCGAGAAGCTTCAGCCCTGCGTGATGAAgtaggtgttt ... atcattgcagTTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG
EST: gi|116426402|gb|EG468994.1|EG468994
EST:     ACTCTAACCAGCAGGAAGATGATCGAGAAGCTTCAGCCCTGCGTGATGAA                         TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG
genomic: ACTCTAACCAGCAGGAAGATGATCGAGAAGCTTCAGCCCTGCGTGATGAAgtaggtgttt ... atcattgcagTTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG
EST: gi|116426395|gb|EG468987.1|EG468987
EST:     ACTCTAACCAGCAGGAAGATGATCGAGAAGCTTCAGCCCTGCGTGATGAA                         TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG
genomic: ACTCTAACCAGCAGGAAGATGATCGAGAAGCTTCAGCCCTGCGTGATGAAgtaggtgttt ... atcattgcagTTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG
EST: gi|116426391|gb|EG468983.1|EG468983
EST:     ACTCTAACCAGCAGGAAGATGATCGAGAAGCTTCAGCCCTGCGTGATGAA                         TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG
genomic: ACTCTAACCAGCAGGAAGATGATCGAGAAGCTTCAGCCCTGCGTGATGAAgtaggtgttt ... atcattgcagTTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG
EST: gi|116426407|gb|EG468999.1|EG468999
EST:     ACTCTAACCAGCAGGAAGATGATCGAGAAGCTTCAGCCCTGCGTGATGAA                         TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG
genomic: ACTCTAACCAGCAGGAAGATGATCGAGAAGCTTCAGCCCTGCGTGATGAAgtaggtgttt ... atcattgcagTTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctattttggttacatcactgatctctcatttgaatccaactcattatcattgcagTTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG
               cactgat  putative branch site (score: 3)
                                          attatcatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggtgtttcccaaaatacaagaaaactattttggttacatcactgatctctcatttgaatccaactcattatcattgcagTTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA