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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcatatttgattcaagcatggttatacgatataatggttcgttaatcaatctttaatgtttgtttaatatgtctctctctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCACCGGAGAAAATCTTCTAGTCGGTGCTAATTTTGCCTCCGCAGGAATTGG

Basic information

species Arabidopsis thaliana
transcript AT3G04290.1
intron # 1
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|86020683|gb|DR316429.1|DR316429
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|86020679|gb|DR316425.1|DR316425
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|86020677|gb|DR316423.1|DR316423
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|86020671|gb|DR316417.1|DR316417
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|86020686|gb|DR316432.1|DR316432
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|86020687|gb|DR316433.1|DR316433
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|86020697|gb|DR316443.1|DR316443
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCAT
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCAT
EST: gi|164175808|gb|ES169268.1|ES169268
EST:     TAGACCCACCGGACGTTTCNCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTT
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTT
EST: gi|86020702|gb|DR316448.1|DR316448
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|86020685|gb|DR316431.1|DR316431
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|124851182|gb|EH935619.1|EH935619
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGC
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGC
EST: gi|86020699|gb|DR316445.1|DR316445
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTAGAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|86020691|gb|DR316437.1|DR316437
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|86020692|gb|DR316438.1|DR316438
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|124925907|gb|EL003830.1|EL003830
EST:     ACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: ACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|124760612|gb|EH850742.1|EH850742
EST:     TAGACCCACCGGACGTCTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGC
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGC
EST: gi|124988250|gb|EL060649.1|EL060649
EST:     AGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGC
genomic: AGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGC
EST: gi|86020701|gb|DR316447.1|DR316447
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|86020690|gb|DR316436.1|DR316436
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|86020704|gb|DR316450.1|DR316450
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGC-GTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|86020676|gb|DR316422.1|DR316422
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|86020693|gb|DR316439.1|DR316439
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|124854578|gb|EH939015.1|EH939015
EST:     TCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|86020672|gb|DR316418.1|DR316418
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
EST: gi|124907659|gb|EH981739.1|EH981739
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCA
EST: gi|86020682|gb|DR316428.1|DR316428
EST:     TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCA                         GTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA
genomic: TAGACCCACCGGACGTTTCTCTAACGGCCTTAACATTCCCGACATTATCAgtaagcatat ... tctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatggttcgttaatcaatctttaatgtttgtttaatatgtctctctctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCACCGGAGAAAATCTTCTAGTCGGTGCTAATTTTGCCTCCGCAGGAATTGG
                             gtttaat  putative branch site (score: 4)
                                     tgtctctctctctact  CT-rich tract
         ttaatcaatctttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcatatttgattcaagcatggttatacgatataatggttcgttaatcaatctttaatgtttgtttaatatgtctctctctctactagGTGAGGCTATAGGCATGCCGTCGACTTTGCCGTACCTTAGCCCGCATCTCACCGGAGAAAATCTTCTAGTCGGTGCTAATTTTGCCTCCGCAGGAATTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA