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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatattgcttccgtagatgtgattccgtttgacaggcatggaacgatgctatacattatgagaattttgctgataattttcattgttgagaagagaaggagtttcttgagttgttgatgaaatgtgtccgaagtatgactctgattgcgcgatggtgttctcatatagGGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATGGGAGCTCTCAAGAATGTAGCTACTG

Basic information

species Physcomitrella patens
transcript PP1S98_113V6.1
intron # 1
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|18349339|gb|BJ181388.1|BJ181388
EST:     CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCA-G--                         GGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
genomic: CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCAGGTTgtgaatattg ... tctcatatagGGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
EST: gi|18343578|gb|BJ175616.1|BJ175616
EST:     CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCA-G--                         GGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
genomic: CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCAGGTTgtgaatattg ... tctcatatagGGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
EST: gi|18366664|gb|BJ198743.1|BJ198743
EST:     CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCA-G--                         GGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
genomic: CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCAGGTTgtgaatattg ... tctcatatagGGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
EST: gi|18375213|gb|BJ206791.1|BJ206791
EST:     CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCA-G--                         GGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
genomic: CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCAGGTTgtgaatattg ... tctcatatagGGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
EST: gi|18366901|gb|BJ198981.1|BJ198981
EST:     CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCA-G--                         GGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
genomic: CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCAGGTTgtgaatattg ... tctcatatagGGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
EST: gi|18362274|gb|BJ194344.1|BJ194344
EST:     CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCA-G--                         GGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
genomic: CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCAGGTTgtgaatattg ... tctcatatagGGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
EST: gi|18366730|gb|BJ198809.1|BJ198809
EST:     CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCA-G--                         GGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
genomic: CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCAGGTTgtgaatattg ... tctcatatagGGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
EST: gi|18367740|gb|BJ199823.1|BJ199823
EST:     CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCAGGTT                         GGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
genomic: CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCAGGTTgtgaatattg ... tctcatatagGGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
EST: gi|18372800|gb|BJ204402.1|BJ204402
EST:     CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCA-G--                         GGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
genomic: CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCAGGTTgtgaatattg ... tctcatatagGGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
EST: gi|18357632|gb|BJ189691.1|BJ189691
EST:     CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCA-G--                         GGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
genomic: CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCAGGTTgtgaatattg ... tctcatatagGGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
EST: gi|18351125|gb|BJ183176.1|BJ183176
EST:     CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCA-G--                         GGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
genomic: CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCAGGTTgtgaatattg ... tctcatatagGGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
EST: gi|18360688|gb|BJ192751.1|BJ192751
EST:     CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCA-G--                         GGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
genomic: CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCAGGTTgtgaatattg ... tctcatatagGGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
EST: gi|18369530|gb|BJ201617.1|BJ201617
EST:     CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCA-G--                         GGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
genomic: CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCAGGTTgtgaatattg ... tctcatatagGGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
EST: gi|18349121|gb|BJ181170.1|BJ181170
EST:     CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCAGG--                         GGG-CAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG
genomic: CTAACAAGTTGAGTTCCAAGGCCATTGTAGACGAATTTCGGCACCAGGTTgtgaatattg ... tctcatatagGGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgatgaaatgtgtccgaagtatgactctgattgcgcgatggtgttctcatatagGGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATGGGAGCTCTCAAGAATGTAGCTACTG
                         ctctgat  putative branch site (score: 4)
                                          tgttctc  putative PPT
                                               tcatata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaatattgcttccgtagatgtgattccgtttgacaggcatggaacgatgctatacattatgagaattttgctgataattttcattgttgagaagagaaggagtttcttgagttgttgatgaaatgtgtccgaagtatgactctgattgcgcgatggtgttctcatatagGGGGCAATCTCTAAAGAGACTAACAAGCCGGTCCAAGGTATTTCGGTGATGGGAGCTCTCAAGAATGTAGCTACTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT