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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagattaatagattttatcttttacgactttcttgcatcatagattttctcaattaacttggacacttcctggactcagACTGTTGCTGGGACACACTGGGACGCCCACGGCAAACCAGTTATGGAGAAAGTTACTCAAAAG

Basic information

species Arabidopsis thaliana
transcript AT2G24420.1
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|125037513|gb|EL109782.1|EL109782
EST:     CTTCCCCCTTGGTTTGCTGTACACTGGAGTAGTTTTCAG                         ACTGTTGCTGGGACACACTGGGACGCCCACGGCAAACCAGTTATGGAGAAA
genomic: CTTCCCCCTTGGTTTGCTGTACACTGGAGTAGTTTTCAGgtgagattaa ... ctggactcagACTGTTGCTGGGACACACTGGGACGCCCACGGCAAACCAGTTATGGAGAAA
EST: gi|163981902|gb|ES056878.1|ES056878
EST:     TGGGGCGTGGCTTCCCCCCTTGGTTTGCTGTACACTGGAGTAGTTTTCAG                         ACTGTTGCTGGGACAC
genomic: TGGGGCGTGGCTTCCCCC-TTGGTTTGCTGTACACTGGAGTAGTTTTCAGgtgagattaa ... ctggactcagACTGTTGCTGGGACAC
EST: gi|164102576|gb|ES031433.1|ES031433
EST:     ATGGGGCGTGGCTTCCCCCTTGGTTTGCTGTACACTGGAGTAGTTTTCAG                         ACTGTTGCTGGGACACACTGGGACGCCCACGGCAAACCAGTTATGGAGAAA
genomic: ATGGGGCGTGGCTTCCCCCTTGGTTTGCTGTACACTGGAGTAGTTTTCAGgtgagattaa ... ctggactcagACTGTTGCTGGGACACACTGGGACGCCCACGGCAAACCAGTTATGGAGAAA
EST: gi|124883304|gb|EH962206.1|EH962206
EST:     AT-GGGCGTGGCTTCCCCCTTGGTTTGCTGTACACTGGAGTAGTTTTCAG                         ACTGTTGCTGGGA
genomic: ATGGGGCGTGGCTTCCCCCTTGGTTTGCTGTACACTGGAGTAGTTTTCAGgtgagattaa ... ctggactcagACTGTTGCTGGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgactttcttgcatcatagattttctcaattaacttggacacttcctggactcagACTGTTGCTGGGACACACTGGGACGCCCACGGCAAACCAGTTATGGAGAAAGTTACTCAAAAG
                           aattaac  putative branch site (score: 2)
                                       cacttcct  putative PPT
                   attttctcaattaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagattaatagattttatcttttacgactttcttgcatcatagattttctcaattaacttggacacttcctggactcagACTGTTGCTGGGACACACTGGGACGCCCACGGCAAACCAGTTATGGAGAAAGTTACTCAAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA