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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattctgttttgttctcaatgagtgtaatgattttttgcattgctcaggacgctactctttattgacgtgtgaacttgattcggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG

Basic information

species Physcomitrella patens
transcript PP1S76_8V6.1
intron # 7
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|37847431|gb|BJ605439.1|BJ605439
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|37849841|gb|BJ607849.1|BJ607849
EST:     GAATGCACTGNCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|37853675|gb|BJ611683.1|BJ611683
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|37838648|gb|BJ596656.1|BJ596656
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|162216227|gb|FC392644.1|FC392644
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|162192369|gb|FC368583.1|FC368583
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|18332625|gb|BJ164638.1|BJ164638
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|67724750|gb|BJ975009.1|BJ975009
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|37848981|gb|BJ606989.1|BJ606989
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|162175399|gb|FC352325.1|FC352325
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|37830105|gb|BJ588117.1|BJ588117
EST:     TGGCCAGCAGGCTATTGGGAAGATCAGGCAAATGNTGTCTTCAG                         TGNCGCGGAATGGAGAATTAATTGGAAATCGG
genomic: TGGCCAGCA-GCTATTGGGAAGATCAGGC-AATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|162258356|gb|FC434283.1|FC434283
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|37849544|gb|BJ607552.1|BJ607552
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|18340077|gb|BJ172105.1|BJ172105
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|37844589|gb|BJ602597.1|BJ602597
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|208351275|gb|DC921554.1|DC921554
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|208398631|gb|DC920526.1|DC920526
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|162183971|gb|FC359341.1|FC359341
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|67694850|gb|BJ955083.1|BJ955083
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|37850732|gb|BJ608740.1|BJ608740
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|67727273|gb|BJ977532.1|BJ977532
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|208348147|gb|DC920938.1|DC920938
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|162224508|gb|FC399884.1|FC399884
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|37824942|gb|BJ583008.1|BJ583008
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|37850796|gb|BJ608804.1|BJ608804
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|208356146|gb|DC946236.1|DC946236
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
EST: gi|37841120|gb|BJ599128.1|BJ599128
EST:     GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAG                         TGACGCGGAATGGAGAATTAATTGGAAATCGG
genomic: GAATGCACTGGCCAGCAGCTATTGGGAAGATCAGGCAATGGTGTCTTCAGgtattctgtt ... ggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcattgctcaggacgctactctttattgacgtgtgaacttgattcggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG
                   tctttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattctgttttgttctcaatgagtgtaatgattttttgcattgctcaggacgctactctttattgacgtgtgaacttgattcggtgttgcagTGACGCGGAATGGAGAATTAATTGGAAATCGG

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