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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agaactaagtcgctttagttagattcatctattgatgtagtgtagttcgatgagatttcaaattgagcgttttgggtctcattgtatgaaaacaatgcagTTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGGTGACTCAGAGACACATCCTTATGTCTCCTTCACTATCAACCTTGCTTAA

Basic information

species Arabidopsis thaliana
transcript AT1G12840.1
intron # 10
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|86077243|gb|DR373000.1|DR373000
EST:     GAAAAGAAAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAG                         TTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGG
genomic: GAAAAGAAAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAGgtatgttaaa ... aacaatgcagTTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGG
EST: gi|124773162|gb|EH863291.1|EH863291
EST:     AAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAG                         TTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGG
genomic: AAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAGgtatgttaaa ... aacaatgcagTTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGG
EST: gi|125044624|gb|EL116893.1|EL116893
EST:     AAAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAG                         TTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGG
genomic: AAAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAGgtatgttaaa ... aacaatgcagTTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGG
EST: gi|86082327|gb|DR378086.1|DR378086
EST:     GAAAAGAAAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAG                         TTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGG
genomic: GAAAAGAAAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAGgtatgttaaa ... aacaatgcagTTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGG
EST: gi|124799985|gb|EH889650.1|EH889650
EST:     GAAAAGAAAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAG                         TTTATACTGGAAAAGCGAGG
genomic: GAAAAGAAAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAGgtatgttaaa ... aacaatgcagTTTATACTGGAAAAGCGAGG
EST: gi|116402070|gb|EG444662.1|EG444662
EST:     GAAAAGAAAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAG                         TTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGG
genomic: GAAAAGAAAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAGgtatgttaaa ... aacaatgcagTTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGG
EST: gi|125001054|gb|EL073323.1|EL073323
EST:     GAAAAGAAAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAG                         TTTATACTGGAAAAGCGAGG
genomic: GAAAAGAAAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAGgtatgttaaa ... aacaatgcagTTTATACTGGAAAAGCGAGG
EST: gi|124878731|gb|EH958168.1|EH958168
EST:     GAAAAGAAAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAG                         TTTATACTGGA
genomic: GAAAAGAAAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAGgtatgttaaa ... aacaatgcagTTTATACTGGA
EST: gi|124892546|gb|EH971448.1|EH971448
EST:     TTCTTGAACGCTTGTGTGATTCTACCAACAG                         TTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGG
genomic: TTCTTGAACGCTTGTGTGATTCTACCAACAGgtatgttaaa ... aacaatgcagTTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGG
EST: gi|164065341|gb|ES164269.1|ES164269
EST:     CTTGTGTGATTCTACCAACAG                         TTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGG
genomic: CTTGTGTGATTCTACCAACAGgtatgttaaa ... aacaatgcagTTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGG
EST: gi|124926247|gb|EL004124.1|EL004124
EST:     GAAAAGAAAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAG                         TTTATACTGGAAAAGCGAGGAGGATGCA
genomic: GAAAAGAAAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAGgtatgttaaa ... aacaatgcagTTTATACTGGAAAAGCGAGGAGGATGCA
EST: gi|124725458|gb|EH816860.1|EH816860
EST:     TACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAG                         TTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGG
genomic: TACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAGgtatgttaaa ... aacaatgcagTTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGG
EST: gi|124833467|gb|EH917906.1|EH917906
EST:     GAAAAGAAAGTACGCTCCATTCTTGAACNCTTGTGTGATTCTACCAACAG                         TTTATACTGGAAAAG
genomic: GAAAAGAAAGTACGCTCCATTCTTGAACGCTTGTGTGATTCTACCAACAGgtatgttaaa ... aacaatgcagTTTATACTGGAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcgatgagatttcaaattgagcgttttgggtctcattgtatgaaaacaatgcagTTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGGTGACTCAGAGACACATCCTTATGTCTCCTTCACTATCAACCTTGCTTAA
         atttcaaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agaactaagtcgctttagttagattcatctattgatgtagtgtagttcgatgagatttcaaattgagcgttttgggtctcattgtatgaaaacaatgcagTTTATACTGGAAAAGCGAGGAGGATGCAGGAGCCATGGCTGGTTTAGCTGGTGACTCAGAGACACATCCTTATGTCTCCTTCACTATCAACCTTGCTTAA

- aactaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gttttgg