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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagattgaagtcacattaatttcatcattgatgcactagtcttggttccaaggatgtaatgaaatctaactctttttgttttggtttatctttagGTGCATGGAGATTACACAGCAGAGGATGTTGGTGTGAAGGTAGACAGGCCAGCTGATGAGACAATGGTTGAGGAGCCAACAGAAATCATCGGAGCTTAGG

Basic information

species Arabidopsis thaliana
transcript AT4G34670.1
intron # 6
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|163973066|gb|ES103302.1|ES103302
EST:     AGGCTCCCAAGTTTGACCTTGGAAAGCTCATGGAG                         GTGCATGGAGATTACACAGCAGAGGATGTTGG
genomic: AGGCTCCCAAGTTTGACCTTGGAAAGCTCATGGAGgtagattgaa ... ttatctttagGTGCATGGAGATTACACAGCAGAGGATGTTGG
EST: gi|47829184|gb|CK118868.1|CK118868
EST:     AAGTGAAGATCCTAAAGGCTCCCAAGTTTGACCTTGGAAAGCTCATGGAG                         GTGCATGGAGATTACACAGCAGAGGATGTTGGTGTGAAGGTAGACAGGCCA
genomic: AAGTGAAGATCCTAAAGGCTCCCAAGTTTGACCTTGGAAAGCTCATGGAGgtagattgaa ... ttatctttagGTGCATGGAGATTACACAGCAGAGGATGTTGGTGTGAAGGTAGACAGGCCA
EST: gi|163969766|gb|ES054792.1|ES054792
EST:     CCCAAGTTTGACCTTGGAAAGCTCATGGAG                         GTGCATGGAGATTACACAGCAGAGGATGTTGGTGTG
genomic: CCCAAGTTTGACCTTGGAAAGCTCATGGAGgtagattgaa ... ttatctttagGTGCATGGAGATTACACAGCAGAGGATGTTGGTGTG
EST: gi|164033190|gb|ES109242.1|ES109242
EST:     AAGTGAAGATCCTAAAGGCTCCCAAGTTTGACCTTGGAAAGCTCATGGAG                         GTGCATGGAGATTACACAGCAGAGG
genomic: AAGTGAAGATCCTAAAGGCTCCCAAGTTTGACCTTGGAAAGCTCATGGAGgtagattgaa ... ttatctttagGTGCATGGAGATTACACAGCAGAGG
EST: gi|86059960|gb|DR355717.1|DR355717
EST:     AAGTGAAGATCCTAAAGGCTCCCAAGTTTGACCTTGGAAAGCTCATGGAG                         GTGCATGGAGATTACACAGCAGAGGATGTTGGTGTGAAGGTAGACAGGCCA
genomic: AAGTGAAGATCCTAAAGGCTCCCAAGTTTGACCTTGGAAAGCTCATGGAGgtagattgaa ... ttatctttagGTGCATGGAGATTACACAGCAGAGGATGTTGGTGTGAAGGTAGACAGGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttggttccaaggatgtaatgaaatctaactctttttgttttggtttatctttagGTGCATGGAGATTACACAGCAGAGGATGTTGGTGTGAAGGTAGACAGGCCAGCTGATGAGACAATGGTTGAGGAGCCAACAGAAATCATCGGAGCTTAGG
                       atctaac  putative branch site (score: 2)
                                            tttatcttt  putative PPT
                                tttttgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagattgaagtcacattaatttcatcattgatgcactagtcttggttccaaggatgtaatgaaatctaactctttttgttttggtttatctttagGTGCATGGAGATTACACAGCAGAGGATGTTGGTGTGAAGGTAGACAGGCCAGCTGATGAGACAATGGTTGAGGAGCCAACAGAAATCATCGGAGCTTAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT