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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcgagtgttttggtcttcctctgatgataattaatctactgtttagccattttcttttattagcttataacataatctttgtttatgcagATCATTATGACCTGAAGATGCTTTGTCATCTTATACTCTCCTTACTAGCAGATAAATGCCCATCAGCCGTACTTGCAG

Basic information

species Arabidopsis thaliana
transcript AT2G02560.2
intron # 26
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|116401655|gb|EG444247.1|EG444247
EST:     AGTTAATCCGTCTTCTTTCATTGTTCCTTTCCTCAAATCCGGATTAGAAG                         ATCATTATGACCTGAAGATGCTTTGTCATCTTATACTCTCCTTACTAGCAG
genomic: AGTTAATCCGTCTTCTTTCATTGTTCCTTTCCTCAAATCCGGATTAGAAGgcgagtgttt ... gtttatgcagATCATTATGACCTGAAGATGCTTTGTCATCTTATACTCTCCTTACTAGCAG
EST: gi|116401710|gb|EG444302.1|EG444302
EST:     AGTTAATCCGTCTTCTTTCATTGTTCCTTTCCTCAAATCCGGATTAGAAG                         ATCATTATGACCTGAAGATGCTTTGTCATCTTATACTCTCCTTACTAGCAG
genomic: AGTTAATCCGTCTTCTTTCATTGTTCCTTTCCTCAAATCCGGATTAGAAGgcgagtgttt ... gtttatgcagATCATTATGACCTGAAGATGCTTTGTCATCTTATACTCTCCTTACTAGCAG
EST: gi|116378952|gb|EG421544.1|EG421544
EST:     AGTTAATCCGTCTTCTTTCATTGTTCCTTTCCTCAAATCCGGATTAGAAG                         ATCATTATGACCTGAAGATGCTTTGTCATCTTATACTCTCCTTACTAGCAG
genomic: AGTTAATCCGTCTTCTTTCATTGTTCCTTTCCTCAAATCCGGATTAGAAGgcgagtgttt ... gtttatgcagATCATTATGACCTGAAGATGCTTTGTCATCTTATACTCTCCTTACTAGCAG
EST: gi|164056912|gb|ES200576.1|ES200576
EST:     TCTTCTTTCATTGTTCCTTTCCTCAAATCCGGATTAGAAG                         ATCAATTATGACCTGAAGATGCTTTGTCATC
genomic: TCTTCTTTCATTGTTCCTTTCCTCAAATCCGGATTAGAAGgcgagtgttt ... gtttatgcagATCA-TTATGACCTGAAGATGCTTTGTCATC
EST: gi|164230384|gb|ES129701.1|ES129701
EST:     AGTTAATCCGTCTTCTTTCATTGTTCCTTTCCTCAAATCCGGATTAGAAG                         ATCATTATGACCTGAAGATGCTTTGTCATCT
genomic: AGTTAATCCGTCTTCTTTCATTGTTCCTTTCCTCAAATCCGGATTAGAAGgcgagtgttt ... gtttatgcagATCATTATGACCTGAAGATGCTTTGTCATCT
EST: gi|164198060|gb|ES093099.1|ES093099
EST:     AGTTAATCCGTCTTCTTTCATTGTTCCTTTCCTCAAATCCGGATTAGAAG                         ATCATTATGACCTGAAGATGCTTTGTCATCT
genomic: AGTTAATCCGTCTTCTTTCATTGTTCCTTTCCTCAAATCCGGATTAGAAGgcgagtgttt ... gtttatgcagATCATTATGACCTGAAGATGCTTTGTCATCT
EST: gi|116401709|gb|EG444301.1|EG444301
EST:     AGTTAATCCGTCTTCTTTCATTGTTCCTTTCCTCAAATCCGGATTAGAAG                         ATCATTATGACCTGAAGATGCTTTGTCATCTTATACTCTCCTTACTAGCAG
genomic: AGTTAATCCGTCTTCTTTCATTGTTCCTTTCCTCAAATCCGGATTAGAAGgcgagtgttt ... gtttatgcagATCATTATGACCTGAAGATGCTTTGTCATCTTATACTCTCCTTACTAGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctactgtttagccattttcttttattagcttataacataatctttgtttatgcagATCATTATGACCTGAAGATGCTTTGTCATCTTATACTCTCCTTACTAGCAGATAAATGCCCATCAGCCGTACTTGCAG
                             ttataac  putative branch site (score: 2)
                                        tctttgttt  putative PPT
             attttcttttattagc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcgagtgttttggtcttcctctgatgataattaatctactgtttagccattttcttttattagcttataacataatctttgtttatgcagATCATTATGACCTGAAGATGCTTTGTCATCTTATACTCTCCTTACTAGCAGATAAATGCCCATCAGCCGTACTTGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT