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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtactcactagtgcttctctgtgtaatcagcatattctgcaaaccaatctcattttgatttcctgagacacggtaaactttgtttttatcagATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTCATATCTGGTTCTGGTAACATCCAAGCCGACATGGAAAGGTTTTGTGCTGAGTTTG

Basic information

species Arabidopsis thaliana
transcript AT2G33470.2
intron # 5
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|125268632|gb|EL282717.1|EL282717
EST:     AAAAACACTCAAGAAATGGCACGGATGGCTCGCCAGCTCTACCTTCTCT                         ATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTCATAT
genomic: AAAAACACTCAAGAAATGGCACGGATGGCTCGCCAGCTCTACCTTCTCTgtatgtactc ... tttttatcagATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTCATAT
EST: gi|163980169|gb|ES149486.1|ES149486
EST:     CCAGCTCTACCTTCTCT                         ATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTCATATCT
genomic: CCAGCTCTACCTTCTCTgtatgtactc ... tttttatcagATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTCATATCT
EST: gi|86080333|gb|DR376090.1|DR376090
EST:     AAAAAACACTCAAGAAATGGCACGGATGGCTCGCCAGCTCTACCTTCTCT                         ATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTCATATCT
genomic: AAAAAACACTCAAGAAATGGCACGGATGGCTCGCCAGCTCTACCTTCTCTgtatgtactc ... tttttatcagATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTCATATCT
EST: gi|164203678|gb|ES066807.1|ES066807
EST:     CCAGCTCTACCTTCTCT                         ATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTCATATCT
genomic: CCAGCTCTACCTTCTCTgtatgtactc ... tttttatcagATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTCATATCT
EST: gi|164184317|gb|ES021036.1|ES021036
EST:     ACACTCAAGAAATGGCACGGATGGCTCGCCAGCTCTACCTTCTCT                         ATGGCTTTAAAGCTAGCTCCGGACAGGAA
genomic: ACACTCAAGAAATGGCACGGATGGCTCGCCAGCTCTACCTTCTCTgtatgtactc ... tttttatcagATGGCTTTAAAGCTAGCTCCGGACAGGAA
EST: gi|163995065|gb|ES162258.1|ES162258
EST:     GCTCTACCTTCTCT                         ATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTCATATCT
genomic: GCTCTACCTTCTCTgtatgtactc ... tttttatcagATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTCATATCT
EST: gi|124884756|gb|EH963658.1|EH963658
EST:     CTCAAGAAATGGCACGGATGGCTCGCCAGCTCTACCTTCTCT                         ATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTCA
genomic: CTCAAGAAATGGCACGGATGGCTCGCCAGCTCTACCTTCTCTgtatgtactc ... tttttatcagATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTCA
EST: gi|86077274|gb|DR373031.1|DR373031
EST:     AAAAAACACTCAAGAAATGGCACGGATGGCTCGCCAGCTCTACCTTCTCT                         ATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTCATATCT
genomic: AAAAAACACTCAAGAAATGGCACGGATGGCTCGCCAGCTCTACCTTCTCTgtatgtactc ... tttttatcagATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTCATATCT
EST: gi|164150936|gb|ES063311.1|ES063311
EST:     CCAGCTCTACCTTCTCT                         ATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTACATATC
genomic: CCAGCTCTACCTTCTCTgtatgtactc ... tttttatcagATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGT-CATATC
EST: gi|125240833|gb|EL254918.1|EL254918
EST:     AAAAAACACTCAAGAAATGGCACGGATGGCTCGCCAGCTCTACCTTCTCT                         ATGGCTTTAAAGCTAGCTCCGGAC
genomic: AAAAAACACTCAAGAAATGGCACGGATGGCTCGCCAGCTCTACCTTCTCTgtatgtactc ... tttttatcagATGGCTTTAAAGCTAGCTCCGGAC
EST: gi|19742507|gb|AU227860.1|AU227860
EST:     AAAAAACACTCAAGAAATGGCACGGATGGCTCGCCAGCTCTACCTTCTCT                         ATGGCTTTAAAGCTAGCTCCGGACA-GAAGAAGTTCATGGATGTCATATCT
genomic: AAAAAACACTCAAGAAATGGCACGGATGGCTCGCCAGCTCTACCTTCTCTgtatgtactc ... tttttatcagATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTCATATCT
EST: gi|125027741|gb|EL100010.1|EL100010
EST:     TGGCTCGCCAGCTCTACCTTCTCT                         ATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGG
genomic: TGGCTCGCCAGCTCTACCTTCTCTgtatgtactc ... tttttatcagATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcaaaccaatctcattttgatttcctgagacacggtaaactttgtttttatcagATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTCATATCTGGTTCTGGTAACATCCAAGCCGACATGGAAAGGTTTTGTGCTGAGTTTG
               ttttgat  putative branch site (score: 4)
                                        ctttgttttt  putative PPT
                                    taaactttgtttttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtactcactagtgcttctctgtgtaatcagcatattctgcaaaccaatctcattttgatttcctgagacacggtaaactttgtttttatcagATGGCTTTAAAGCTAGCTCCGGACAGGAAGAAGTTCATGGATGTCATATCTGGTTCTGGTAACATCCAAGCCGACATGGAAAGGTTTTGTGCTGAGTTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA