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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacagctcttgcaatatctttttctttaaatcgagagagatcctagtttgtttaaagagtgaattgactctcgcatgtttactttgatatgtggctttgcagGACGTCAGTTGCTCAAGTGAAGCACTACATACTCTTCAAGGCACAGTGCTTTACTCATCCCTCACTGGGGAAGTTTTGAGGCTGCAGTATCCTTCACTTC

Basic information

species Arabidopsis thaliana
transcript AT2G42240.2
intron # 8
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|116391476|gb|EG434068.1|EG434068
EST:     TGAAGATTCAGGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAG                         GACGTCAGTTGCTCAAGTGAAGCACTACATACTCT
genomic: TGAAGATTCAGGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAGgtacagctct ... ggctttgcagGACGTCAGTTGCTCAAGTGAAGCACTACATACTCT
EST: gi|116391480|gb|EG434072.1|EG434072
EST:     TGAAGATTCAGGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAG                         GACGTCAGTTGCTCAAGTGAAGCACTACATACTCTTCAAGGCACAGTGCTT
genomic: TGAAGATTCAGGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAGgtacagctct ... ggctttgcagGACGTCAGTTGCTCAAGTGAAGCACTACATACTCTTCAAGGCACAGTGCTT
EST: gi|116391488|gb|EG434080.1|EG434080
EST:     TGAAGATTCAGGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAG                         GACGTCAGTTGCTCAAGTGAAGCACTACATACTCTTCAAGGCACAGTGCTT
genomic: TGAAGATTCAGGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAGgtacagctct ... ggctttgcagGACGTCAGTTGCTCAAGTGAAGCACTACATACTCTTCAAGGCACAGTGCTT
EST: gi|116391485|gb|EG434077.1|EG434077
EST:     TGAAGATTCAGGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAG                         GACGTCAGTTGCTCAAGTGAAGC
genomic: TGAAGATTCAGGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAGgtacagctct ... ggctttgcagGACGTCAGTTGCTCAAGTGAAGC
EST: gi|116391481|gb|EG434073.1|EG434073
EST:     TGAAGATTCAAGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAG                         GACGTCAGTTGCT
genomic: TGAAGATTCAGGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAGgtacagctct ... ggctttgcagGACGTCAGTTGCT
EST: gi|116391487|gb|EG434079.1|EG434079
EST:     TGAAGATTCAGGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAG                         GACGTCAGTTGCTCAAGTGAAGCACTACATACTCTTCAAGGCACAGTGCTT
genomic: TGAAGATTCAGGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAGgtacagctct ... ggctttgcagGACGTCAGTTGCTCAAGTGAAGCACTACATACTCTTCAAGGCACAGTGCTT
EST: gi|116391479|gb|EG434071.1|EG434071
EST:     TGAAGATTCAGGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAG                         GACGTCAGTTGCTCAAGTGAAGCACTACATACTCTTCAAGGCACAGTGCTT
genomic: TGAAGATTCAGGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAGgtacagctct ... ggctttgcagGACGTCAGTTGCTCAAGTGAAGCACTACATACTCTTCAAGGCACAGTGCTT
EST: gi|116391419|gb|EG434011.1|EG434011
EST:     TGAAGATTCAGGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAG                         GACGTCAGTTGCTCAAGTGAAGCACTACATACTCTTCAAGGCACAGTGCTT
genomic: TGAAGATTCAGGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAGgtacagctct ... ggctttgcagGACGTCAGTTGCTCAAGTGAAGCACTACATACTCTTCAAGGCACAGTGCTT
EST: gi|116391483|gb|EG434075.1|EG434075
EST:     TGAAGATTCAGGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAG                         GACGTCAGTTG
genomic: TGAAGATTCAGGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAGgtacagctct ... ggctttgcagGACGTCAGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtttaaagagtgaattgactctcgcatgtttactttgatatgtggctttgcagGACGTCAGTTGCTCAAGTGAAGCACTACATACTCTTCAAGGCACAGTGCTTTACTCATCCCTCACTGGGGAAGTTTTGAGGCTGCAGTATCCTTCACTTC
                              tttacttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacagctcttgcaatatctttttctttaaatcgagagagatcctagtttgtttaaagagtgaattgactctcgcatgtttactttgatatgtggctttgcagGACGTCAGTTGCTCAAGTGAAGCACTACATACTCTTCAAGGCACAGTGCTTTACTCATCCCTCACTGGGGAAGTTTTGAGGCTGCAGTATCCTTCACTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG