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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAGgtacattcaaactcggaatatacttgcactcttctgcaggttttccagcactaacgaatagaatattttacgggtatgccttgtcgacttcctccttacttagtttactgatcggctctccaagtacttgctgcaactctctattgtggtatgtcatgcag

Basic information

species Physcomitrella patens
transcript PP1S14_250V6.2
intron # 16
splice site 5'
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|67725231|gb|BJ975490.1|BJ975490
EST:     GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAG                         GTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
genomic: GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAGgtacattcaa ... tgtcatgcagGTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
EST: gi|162238755|gb|FC419053.1|FC419053
EST:     GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAG                         GTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
genomic: GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAGgtacattcaa ... tgtcatgcagGTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
EST: gi|37822061|gb|BJ580127.1|BJ580127
EST:     GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAG                         GTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
genomic: GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAGgtacattcaa ... tgtcatgcagGTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
EST: gi|6102231|gb|AW126701.1|AW126701
EST:     GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAG                         GTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
genomic: GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAGgtacattcaa ... tgtcatgcagGTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
EST: gi|19787424|gb|BQ040623.1|BQ040623
EST:     GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAG                         GTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
genomic: GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAGgtacattcaa ... tgtcatgcagGTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
EST: gi|18340446|gb|BJ172474.1|BJ172474
EST:     CTAGCTGTTGGCGGTTCAGACATAAGG                         GTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTT
genomic: CTAGCTGTTGGCGGTTCAGACATAA-Ggtacattcaa ... tgtcatgcagGTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTT
EST: gi|67726008|gb|BJ976267.1|BJ976267
EST:     GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAG                         GTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
genomic: GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAGgtacattcaa ... tgtcatgcagGTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
EST: gi|162167817|gb|FC344547.1|FC344547
EST:     GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAG                         GTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
genomic: GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAGgtacattcaa ... tgtcatgcagGTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
EST: gi|37852835|gb|BJ610843.1|BJ610843
EST:     GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAG                         GTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
genomic: GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAGgtacattcaa ... tgtcatgcagGTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
EST: gi|162257669|gb|FC433596.1|FC433596
EST:     GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAG                         GTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
genomic: GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAGgtacattcaa ... tgtcatgcagGTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
EST: gi|37830480|gb|BJ588492.1|BJ588492
EST:     GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAG                         GTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
genomic: GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAGgtacattcaa ... tgtcatgcagGTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
EST: gi|162182528|gb|FC357503.1|FC357503
EST:     GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAG                         GTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT
genomic: GAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAGgtacattcaa ... tgtcatgcagGTTGTATCAAGTAGCAAGTGTCAAGCAGGAGTGGAATACCATTAAAGTTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGAATTTGATTACAGTGGAAGCTACCTAGCTGTTGGCGGTTCAGACATAAGgtacattcaaactcggaatatacttgcactcttctgcaggttttccagcactaacgaatagaatattttacgggtatgccttgtcgacttcctccttacttagtttactgatcggctctccaagtacttgctgcaactctctattgtggtatgtcatgcag

- - - - - - - AGTGGA
- - - - - - - - TGGAAG
- - - - - - - - - - - - - -  GCTGTT