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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttacctttgctgttagcacaattgaaaagttatcttctttgagtttttttttaattgataatggttttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTTAACCAATTGGCTGAGCAGCTTCAGAGATCTATTCCTAACGCTGGCCAGG

Basic information

species Arabidopsis thaliana
transcript AT4G35450.1
intron # 3
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|86041554|gb|DR337309.1|DR337309
EST:     GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAAC                         GATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCCTTT
genomic: GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAACgtaagttacc ... ttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTT
EST: gi|86041565|gb|DR337320.1|DR337320
EST:     GCTTGAATTTCAATGCTTTAGATTTCTCTAATATGGCTAGTATTCTCAAC                         GATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCCTTT
genomic: GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAACgtaagttacc ... ttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTT
EST: gi|86041556|gb|DR337311.1|DR337311
EST:     GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAAC                         GATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCCTTT
genomic: GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAACgtaagttacc ... ttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTT
EST: gi|124786574|gb|EH876253.1|EH876253
EST:     TATGGCTAGTATTCTCAAC                         GATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTT
genomic: TATGGCTAGTATTCTCAACgtaagttacc ... ttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTT
EST: gi|86041562|gb|DR337317.1|DR337317
EST:     GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAAC                         GATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCCTTT
genomic: GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAACgtaagttacc ... ttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTT
EST: gi|86041557|gb|DR337312.1|DR337312
EST:     GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAAC                         GATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCCTTT
genomic: GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAACgtaagttacc ... ttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTT
EST: gi|86041567|gb|DR337322.1|DR337322
EST:     GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAAC                         GATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCCTTT
genomic: GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAACgtaagttacc ... ttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTT
EST: gi|124750583|gb|EH840713.1|EH840713
EST:     ATATGGCTAGTATTCTCAAC                         GATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTT
genomic: ATATGGCTAGTATTCTCAACgtaagttacc ... ttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTT
EST: gi|86041568|gb|DR337323.1|DR337323
EST:     GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAAC                         GATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCCTTT
genomic: GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAACgtaagttacc ... ttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTT
EST: gi|125101748|gb|EL156764.1|EL156764
EST:     GCTAGTATTCTCAAC                         GATCCTAGCTTCAGAGAAATGGCTGAGCAAATAGCTAAAGATC
genomic: GCTAGTATTCTCAACgtaagttacc ... ttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATC
EST: gi|124874209|gb|EH955854.1|EH955854
EST:     CTTTTGATTTCTCTAATATGGCTAGTATTCTCAAC                         GATCCTAGCATCAGAGAAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTT
genomic: CTTTTGATTTCTCTAATATGGCTAGTATTCTCAACgtaagttacc ... ttttttgtagGATCCTAGCATCAGAGAAA-TGGCTGAGCAAATAGCTAAAGATCCTGCGTT
EST: gi|125224035|gb|EL238120.1|EL238120
EST:     GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAAC                         GATCCTAGCATCAGAGAAATGG
genomic: GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAACgtaagttacc ... ttttttgtagGATCCTAGCATCAGAGAAATGG
EST: gi|86041563|gb|DR337318.1|DR337318
EST:     GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAAC                         GATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCCTTT
genomic: GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAACgtaagttacc ... ttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTT
EST: gi|86041544|gb|DR337299.1|DR337299
EST:     GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAAC                         GATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCCTTT
genomic: GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAACgtaagttacc ... ttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTT
EST: gi|86041553|gb|DR337308.1|DR337308
EST:     GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAAC                         GATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCCTTT
genomic: GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAACgtaagttacc ... ttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTT
EST: gi|86041552|gb|DR337307.1|DR337307
EST:     GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAAC                         GATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCCTTT
genomic: GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAACgtaagttacc ... ttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTT
EST: gi|152034676|gb|BP834471.2|BP834471
EST:     GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAAC                         GATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTT
genomic: GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAACgtaagttacc ... ttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTT
EST: gi|86041566|gb|DR337321.1|DR337321
EST:     GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAAC                         GATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCCTTT
genomic: GCTTGAATTTCAATGCTTTTGATTTCTCTAATATGGCTAGTATTCTCAACgtaagttacc ... ttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaaaagttatcttctttgagtttttttttaattgataatggttttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTTAACCAATTGGCTGAGCAGCTTCAGAGATCTATTCCTAACGCTGGCCAGG
                                           ttttttttgt  CT-rich tract
                tttgagttttttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttacctttgctgttagcacaattgaaaagttatcttctttgagtttttttttaattgataatggttttttttgtagGATCCTAGCATCAGAGAAATGGCTGAGCAAATAGCTAAAGATCCTGCGTTTAACCAATTGGCTGAGCAGCTTCAGAGATCTATTCCTAACGCTGGCCAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC