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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttgatgttgatgataacgttgtagatgttcatgaaatgctgtcctagtgatttatgcccccatgcaacaacttgttcaccaaattgacgctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGCATTCTACAAGCGGTAACTGGGGATACTGAAGTAGCTCTGACAGTTCCAT

Basic information

species Physcomitrella patens
transcript PP1S76_20V6.1
intron # 2
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|208377714|gb|DC932250.1|DC932250
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208367167|gb|DC935967.1|DC935967
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208360091|gb|DC939339.1|DC939339
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208391086|gb|DC933459.1|DC933459
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208363890|gb|DC943347.1|DC943347
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208390316|gb|DC942039.1|DC942039
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208353634|gb|DC938743.1|DC938743
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208370852|gb|DC936890.1|DC936890
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208390998|gb|DC929317.1|DC929317
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208386873|gb|DC941577.1|DC941577
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208359616|gb|DC943172.1|DC943172
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208390907|gb|DC942225.1|DC942225
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208363449|gb|DC935242.1|DC935242
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208370092|gb|DC940385.1|DC940385
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208392065|gb|DC941913.1|DC941913
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208389268|gb|DC933296.1|DC933296
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208356993|gb|DC930023.1|DC930023
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208355855|gb|DC930218.1|DC930218
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208368624|gb|DC939975.1|DC939975
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208386377|gb|DC937044.1|DC937044
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208388702|gb|DC941515.1|DC941515
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208357532|gb|DC934054.1|DC934054
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208357187|gb|DC942765.1|DC942765
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208392541|gb|DC933941.1|DC933941
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208393397|gb|DC942495.1|DC942495
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208367243|gb|DC939815.1|DC939815
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208390857|gb|DC942203.1|DC942203
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208363630|gb|DC939793.1|DC939793
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208363344|gb|DC943566.1|DC943566
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208368474|gb|DC935997.1|DC935997
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTGCTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208371052|gb|DC931540.1|DC931540
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208391100|gb|DC938130.1|DC938130
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208363854|gb|DC943311.1|DC943311
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208389585|gb|DC929468.1|DC929468
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208372919|gb|DC940550.1|DC940550
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208372997|gb|DC940628.1|DC940628
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
EST: gi|208369539|gb|DC936315.1|DC936315
EST:     CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTT                         GTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC
genomic: CGGCCGTCACTCTCGCTTTCGCGTCCAAGAAGATGTTCCCATTACAGCTTgtgagtgaag ... gctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctagtgatttatgcccccatgcaacaacttgttcaccaaattgacgctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGCATTCTACAAGCGGTAACTGGGGATACTGAAGTAGCTCTGACAGTTCCAT
                                      aattgac  putative branch site (score: 3)
                                            cgctcctcc  CT-rich tract
      atttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttttgatgttgatgataacgttgtagatgttcatgaaatgctgtcctagtgatttatgcccccatgcaacaacttgttcaccaaattgacgctcctccagGTTCCGATTTACCTGATTGCACAATTTCTAGGAGCTTTACTCGCAGCAGGCATTCTACAAGCGGTAACTGGGGATACTGAAGTAGCTCTGACAGTTCCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccatgc