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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgtatgtacatctgtcttgttagttatatgcgaatgcttttgcattttacaaaattggttcagcgacacagtacattaacaagaactttcctatgacagGTGGACAAACAAGCATCAG

Basic information

species Arabidopsis thaliana
transcript AT2G24765.2
intron # 3
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|86084655|gb|DR380414.1|DR380414
EST:     CGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAG                         GTGGACAAACAAGCATCAG
genomic: CGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAGgtatgttttc ... cctatgacagGTGGACAAACAAGCATCAG
EST: gi|125249151|gb|EL263236.1|EL263236
EST:     CGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAG                         GTGGACAAACAAG
genomic: CGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAGgtatgttttc ... cctatgacagGTGGACAAACAAG
EST: gi|125296023|gb|EL310108.1|EL310108
EST:     CGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAG                         GTGGACGAACAAG
genomic: CGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAGgtatgttttc ... cctatgacagGTGGACAAACAAG
EST: gi|124933836|gb|EL010958.1|EL010958
EST:     CAACAATATCAAGTTTCAGGTCTGGGATTTAG                         GTGGACAAACAAGCATCAG
genomic: CAACAATATCAAGTTTCAGGTCTGGGATTTAGgtatgttttc ... cctatgacagGTGGACAAACAAGCATCAG
EST: gi|124708200|gb|EH799602.1|EH799602
EST:     CGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAG                         GNGGACAAACAAGCATC
genomic: CGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAGgtatgttttc ... cctatgacagGTGGACAAACAAGCATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttacaaaattggttcagcgacacagtacattaacaagaactttcctatgacagGTGGACAAACAAGCATCAG
                             cattaac  putative branch site (score: 2)
                                         ctttcctat  putative PPT
                           tacattaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgtatgtacatctgtcttgttagttatatgcgaatgcttttgcattttacaaaattggttcagcgacacagtacattaacaagaactttcctatgacagGTGGACAAACAAGCATCAG

- - - - - - - - - - - - - - - - - - gcttttg
- - - - - - - - - - - - - - - - - - - - - - - - tacaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cgacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caagaac