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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agaatctgaaaggtaatattagtatgaatttgtaatacctttttgagtttaccctatgatggtaactactttctcagtctcttttttatcttttaagtagGAGCCGAGTAGTGTTGAGAAGATTATGGAAATTGATGACCATATAGGTTGTGCTATGAGTGGTCTGATTGCTGACGCGCGAACACTTGTTGAGCATGCAC

Basic information

species Arabidopsis thaliana
transcript AT3G14290.1
intron # 4
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|164078188|gb|EL991565.1|EL991565
EST:     AGTCGAGAAGCGTATTACTTCGCCTTTACTG                         GAGCCGAGTAGTGTTGAGAAGATTATGGAAATTGATGACCATATAGGTTGT
genomic: AGTCGAGAAGCGTATTACTTCGCCTTTACTGgtatagtttc ... ttttaagtagGAGCCGAGTAGTGTTGAGAAGATTATGGAAATTGATGACCATATAGGTTGT
EST: gi|152033857|gb|BP817785.2|BP817785
EST:     AAGAGGGAGTTGTTCTTGCAGTCGAGAAGCGTATTACTTCGCCTTTACTG                         GAGCCGAGTAGTGTTGAGAAGATTATGGAAATTGATGACCATATAGGTTGT
genomic: AAGAGGGAGTTGTTCTTGCAGTCGAGAAGCGTATTACTTCGCCTTTACTGgtatagtttc ... ttttaagtagGAGCCGAGTAGTGTTGAGAAGATTATGGAAATTGATGACCATATAGGTTGT
EST: gi|116474984|gb|EG517576.1|EG517576
EST:     AAGAGGGAGTTGTTCTTGCAGTCGAGAAGCGTATTACTTCGCCTTTACTG                         GAGCCGAGTAGTGTTGAGAAGATTATGGAAATTGATGACCATATAGGTTGT
genomic: AAGAGGGAGTTGTTCTTGCAGTCGAGAAGCGTATTACTTCGCCTTTACTGgtatagtttc ... ttttaagtagGAGCCGAGTAGTGTTGAGAAGATTATGGAAATTGATGACCATATAGGTTGT
EST: gi|86075577|gb|DR371334.1|DR371334
EST:     AAGAGGGAGTTGTTCTTGCAGTCGAGAAGCGTATTACTTCGCCTTTACTG                         GAGCCGAGTAGTGTTGAGAAGATTATGGAAATTGATGACCATATAGGTTGT
genomic: AAGAGGGAGTTGTTCTTGCAGTCGAGAAGCGTATTACTTCGCCTTTACTGgtatagtttc ... ttttaagtagGAGCCGAGTAGTGTTGAGAAGATTATGGAAATTGATGACCATATAGGTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtttaccctatgatggtaactactttctcagtctcttttttatcttttaagtagGAGCCGAGTAGTGTTGAGAAGATTATGGAAATTGATGACCATATAGGTTGTGCTATGAGTGGTCTGATTGCTGACGCGCGAACACTTGTTGAGCATGCAC
              tggtaac  putative branch site (score: 2)
                    ctactttctcagtctc  CT-rich tract
                                    ttttttatcttttaag  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agaatctgaaaggtaatattagtatgaatttgtaatacctttttgagtttaccctatgatggtaactactttctcagtctcttttttatcttttaagtagGAGCCGAGTAGTGTTGAGAAGATTATGGAAATTGATGACCATATAGGTTGTGCTATGAGTGGTCTGATTGCTGACGCGCGAACACTTGTTGAGCATGCAC

- - -ctgaaag