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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttacatcctccattcaagttcccatacaatttggctgtcttcgataatcaaaaacctgtttgaactaagtactgtttttgtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAG

Basic information

species Arabidopsis thaliana
transcript AT2G28190.1
intron # 4
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|124742215|gb|EH833377.1|EH833377
EST:     TGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAACAATAGTGGACAATCAG
genomic: TGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAG
EST: gi|124732629|gb|EH824031.1|EH824031
EST:     TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAACAATAGTGGACAATCAGATTCCT
genomic: TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAGATTCCT
EST: gi|164067309|gb|ES173463.1|ES173463
EST:     TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAA
genomic: TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAA
EST: gi|125198821|gb|EL213775.1|EL213775
EST:     TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAACAA
genomic: TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAA
EST: gi|301502082|gb|HO207622.1|HO207622
EST:     TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAACAATAGTGGACAATCAG
genomic: TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAG
EST: gi|116429789|gb|EG472381.1|EG472381
EST:     TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAACAATAGTGGACAATCAG
genomic: TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAG
EST: gi|125092275|gb|EL150098.1|EL150098
EST:     TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAA
genomic: TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAA
EST: gi|124796998|gb|EH886677.1|EH886677
EST:     GTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAACAATAGTGGACAATCAG
genomic: GTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAG
EST: gi|124725556|gb|EH816958.1|EH816958
EST:     AAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAACAATAGTGGACAATCAG
genomic: AAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAG
EST: gi|124735252|gb|EH826654.1|EH826654
EST:     CGGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAACAATAGTGGACAATCAG
genomic: CGGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAG
EST: gi|125013658|gb|EL085927.1|EL085927
EST:     TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAACAATAGTGGACAATCAG
genomic: TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAG
EST: gi|124802294|gb|EH891241.1|EH891241
EST:     TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAA
genomic: TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAA
EST: gi|124902527|gb|EH976607.1|EH976607
EST:     AAACATAAATGCCAATGCCGATG                         GCGTTGGCAGAAACAACAATAGTGGACAATCAG
genomic: AAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCG-TGGCAGAAACAACAATAGTGGACAATCAG
EST: gi|164086541|gb|ES148154.1|ES148154
EST:     TGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAACAATAGTGGACAATCAG
genomic: TGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAG
EST: gi|116462064|gb|EG504656.1|EG504656
EST:     TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAACAATAGTGGACAATCAG
genomic: TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAG
EST: gi|86080763|gb|DR376520.1|DR376520
EST:     TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAACAATAGTGGACAATCAG
genomic: TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAG
EST: gi|125035483|gb|EL107752.1|EL107752
EST:     TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAACAATAG
genomic: TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAATAG
EST: gi|125054687|gb|EL125250.1|EL125250
EST:     TGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAACAATAGTGGACAATCAG
genomic: TGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAG
EST: gi|124972982|gb|EL046643.1|EL046643
EST:     GAGTGCCGTCATTGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAACAATAGTGGACAA
genomic: GAGTGCCGTCA-TGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAATAGTGGACAA
EST: gi|124785862|gb|EH875541.1|EH875541
EST:     CGGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAACAATAGTGGACAATCAG
genomic: CGGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAG
EST: gi|125015457|gb|EL087726.1|EL087726
EST:     GGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAACAATAGTGGACAATCAGAT
genomic: GGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAGAT
EST: gi|125325576|gb|EL339656.1|EL339656
EST:     CCGTCATGCGGGTGACCTGGGAAACATAAATTGCCAATGCCGATG                         GCGTGGCAGAAACAACAATAGTGGACAATCAG
genomic: CCGTCATGCGGGTGACCTGGGAAACATAAA-TGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAG
EST: gi|116438236|gb|EG480828.1|EG480828
EST:     TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATG                         GCGTGGCAGAAACAACAATAGTGGACAATCAG
genomic: TGAGTGCCGTCATGCGGGTGACCTGGGAAACATAAATGCCAATGCCGATGgtattttaca ... gtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgtcttcgataatcaaaaacctgtttgaactaagtactgtttttgtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAG
                                           ttgtaac  putative branch site (score: 2)
                                        tttttgt  CT-rich tract
         ataatcaaaaa  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattttacatcctccattcaagttcccatacaatttggctgtcttcgataatcaaaaacctgtttgaactaagtactgtttttgtaacaacagGCGTGGCAGAAACAACAATAGTGGACAATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA