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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggagatataaacgaaaatgcatactaaatgacgttatcatttctcgatacttatgtttctccttggggcagCTCGATCAACAATTATTGGCTGTGTACATAAACTAAGAAGAAAGTCATTGGTCGGAATCAAAGTGGAGGAAGAAGCCTGAAGTGTCGTCTCTGTATGATG

Basic information

species Arabidopsis thaliana
transcript AT1G75380.2
intron # 10
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|125214696|gb|EL229014.1|EL229014
EST:     CAGTTTCGGGCCAAACGTAACTTGAGGAAATACACATGAGAGAG                         CTCGATCAACAATTAATTGGCTGTGTACATAAACTAAGAAGAAAGTCATTG
genomic: CAGTTTCGGGCCAAACGTAACTTGAGGAAATACACATGAGAGAGgtaaggagat ... cttggggcagCTCGATCAACAATTA-TTGGCTGTGTACATAAACTAAGAAGAAAGTCATTG
EST: gi|124951678|gb|EL027022.1|EL027022
EST:     TTTCGGGCCAAACGTAACTTGAGGAAATACACATGAGAGAG                         CTCGATCAACAATTA
genomic: TTTCGGGCCAAACGTAACTTGAGGAAATACACATGAGAGAGgtaaggagat ... cttggggcagCTCGATCAACAATTA
EST: gi|124879344|gb|EH958781.1|EH958781
EST:     GTCAGTTTCGGGCCAAACGTAACTTGAGGAAATACACATGAGAGAG                         CTCGATCAACAATTATTGGCTGTGTACATAAA
genomic: GTCAGTTTCGGGCCAAACGTAACTTGAGGAAATACACATGAGAGAGgtaaggagat ... cttggggcagCTCGATCAACAATTATTGGCTGTGTACATAAA
EST: gi|164166330|gb|EL988496.1|EL988496
EST:     GGGCCAAACGTAACTTGAGGAAATACACATGAGAGAG                         CTCGATCAACAACTATTGGCTGTGTAC
genomic: GGGCCAAACGTAACTTGAGGAAATACACATGAGAGAGgtaaggagat ... cttggggcagCTCGATCAACAATTATTGGCTGTGTAC
EST: gi|125262939|gb|EL277024.1|EL277024
EST:     TTTCGGGCCAAACGTAACTTGAGGAAATACACATGAGAGAG                         CTCGATCAACAATT
genomic: TTTCGGGCCAAACGTAACTTGAGGAAATACACATGAGAGAGgtaaggagat ... cttggggcagCTCGATCAACAATT
EST: gi|124773205|gb|EH863334.1|EH863334
EST:     CTTGGTCAGTTTCGGGCCAAACGTAACTTGAGGAAATACACATGAGAGAG                         CTCGATCAACAATTATTGG
genomic: CTTGGTCAGTTTCGGGCCAAACGTAACTTGAGGAAATACACATGAGAGAGgtaaggagat ... cttggggcagCTCGATCAACAATTATTGG
EST: gi|124837942|gb|EH922381.1|EH922381
EST:     TTTCGGGCCAAACGTAACTTGAGGAAATACACATGAGAGAG                         CTCGATCAACAATTATTGGCTGTGTAC
genomic: TTTCGGGCCAAACGTAACTTGAGGAAATACACATGAGAGAGgtaaggagat ... cttggggcagCTCGATCAACAATTATTGGCTGTGTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgcatactaaatgacgttatcatttctcgatacttatgtttctccttggggcagCTCGATCAACAATTATTGGCTGTGTACATAAACTAAGAAGAAAGTCATTGGTCGGAATCAAAGTGGAGGAAGAAGCCTGAAGTGTCGTCTCTGTATGATG
     tactaaa  putative branch site (score: 1)
                                 cttatgtttctcctt  putative PPT
                 ttatcattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaggagatataaacgaaaatgcatactaaatgacgttatcatttctcgatacttatgtttctccttggggcagCTCGATCAACAATTATTGGCTGTGTACATAAACTAAGAAGAAAGTCATTGGTCGGAATCAAAGTGGAGGAAGAAGCCTGAAGTGTCGTCTCTGTATGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG