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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAAGGTGGAGCCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttctcatcactatatatatgcactgaatgatctattaactgcgtgtggattaacatatgattttgtatataaactgcag

Basic information

species Arabidopsis thaliana
transcript AT5G25980.2
intron # 3
splice site 5'
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|116450039|gb|EG492631.1|EG492631
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|47831614|gb|CK121298.1|CK121298
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|47828775|gb|CK118459.1|CK118459
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|116459414|gb|EG502006.1|EG502006
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|116459426|gb|EG502018.1|EG502018
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|116410417|gb|EG453009.1|EG453009
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|125106401|gb|EL159839.1|EL159839
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATACTAGACGTGATGGAAGAGCTTGGAGTT
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGAT-CTAGACGTGATGGAAGAGCTTGGAGTT
EST: gi|116477703|gb|EG520295.1|EG520295
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|116400371|gb|EG442963.1|EG442963
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|116410415|gb|EG453007.1|EG453007
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|116459408|gb|EG502000.1|EG502000
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|125255339|gb|EL269424.1|EL269424
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGC
EST: gi|47829862|gb|CK119546.1|CK119546
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|116439048|gb|EG481640.1|EG481640
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|47828808|gb|CK118492.1|CK118492
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|116439115|gb|EG481707.1|EG481707
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|124754483|gb|EH844613.1|EH844613
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCGTACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGG
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGG
EST: gi|124788745|gb|EH878424.1|EH878424
EST:     TGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: TGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|47828824|gb|CK118508.1|CK118508
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|125134249|gb|EL175266.1|EL175266
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATT
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATT
EST: gi|116477702|gb|EG520294.1|EG520294
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|116444211|gb|EG486803.1|EG486803
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|116410414|gb|EG453006.1|EG453006
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|125183255|gb|EL198243.1|EL198243
EST:     TACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: TACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|47829256|gb|CK118940.1|CK118940
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
EST: gi|116410418|gb|EG453010.1|EG453010
EST:     CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAG                         AAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC
genomic: CCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttct ... taaactgcagAAAGATCTAGACGTGATGGAAGAGCTTGGAGTTAAAGGCTACAGATTCTCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAAAGGTGGAGCCGATTTGGGCAATGGAGACACTACTTGTGACTCATACCGGACTTGGCAGgttaatttctcatcactatatatatgcactgaatgatctattaactgcgtgtggattaacatatgattttgtatataaactgcag

- - - - - - - - - - - -  TGGAGA