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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtcgtgagttctatccttgaaatagcttatggtacttggtaaagaaaaaaaagtggttttgtctagagcatctgatattttcgcttttgctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG

Basic information

species Physcomitrella patens
transcript PP1S47_175V6.1
intron # 3
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|100446572|gb|CJ970871.1|CJ970871
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|100448859|gb|CJ973158.1|CJ973158
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAA-TTGAAGGAGCGATTTGACTTTTTCTT
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTT
EST: gi|208400386|gb|DC925024.1|DC925024
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|100375388|gb|BY948854.1|BY948854
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|100448868|gb|CJ973167.1|CJ973167
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAA-TTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|208353342|gb|DC946290.1|DC946290
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|208363065|gb|DC946934.1|DC946934
EST:     TCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: TCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|100379831|gb|BY949966.1|BY949966
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|67724008|gb|BJ974267.1|BJ974267
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|208355833|gb|DC930196.1|DC930196
EST:     CAGGTTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|100427879|gb|BY959171.1|BY959171
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGGAGGGT                         CGTTGTTTGACTGCTGCAAAATTTGA-GGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATT-GAAGGAGCGATTTGACTTTTTCTTG
EST: gi|67569178|gb|BJ942002.1|BJ942002
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|208384047|gb|DC911225.1|DC911225
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|208366345|gb|DC943863.1|DC943863
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|208370373|gb|DC931785.1|DC931785
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|100381026|gb|BY986852.1|BY986852
EST:     CAGATTTGATCAAACCCCGGCACAAGGTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGGAGGAGCGATTTGACTTTTTTCTTGGA
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTT-CTTGGA
EST: gi|208394403|gb|DC942563.1|DC942563
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|67692423|gb|BJ952656.1|BJ952656
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|208389723|gb|DC938299.1|DC938299
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|208391012|gb|DC929331.1|DC929331
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|67716920|gb|BJ967179.1|BJ967179
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|67709929|gb|BJ965745.1|BJ965745
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|100442587|gb|BY963281.1|BY963281
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|100364611|gb|BY947820.1|BY947820
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|208385596|gb|DC937141.1|DC937141
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|208380443|gb|DC914867.1|DC914867
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|208373997|gb|DC944730.1|DC944730
EST:     TTGATCAAACCCCGGCACAAGTTTGTCTT-GCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: TTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|208354200|gb|DC957420.1|DC957420
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|67725438|gb|BJ975697.1|BJ975697
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|208389767|gb|DC933641.1|DC933641
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|208361102|gb|DC957553.1|DC957553
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|162272918|gb|FC448854.1|FC448854
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|208368388|gb|DC955557.1|DC955557
EST:     CAGA-TTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|162272917|gb|FC448853.1|FC448853
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|208368823|gb|DC951347.1|DC951347
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
EST: gi|208387707|gb|DC937272.1|DC937272
EST:     CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGT                         CGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
genomic: CAGATTTGATCAAACCCCGGCACAAGTTTGTCTTGGCCTCAGTGAAGGGTgtgagtaaaa ... ctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaaaaagtggttttgtctagagcatctgatattttcgcttttgctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG
                         atctgat  putative branch site (score: 4)
                                 ttttcgcttttgctcc  CT-rich tract
                            tgatatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtcgtgagttctatccttgaaatagcttatggtacttggtaaagaaaaaaaagtggttttgtctagagcatctgatattttcgcttttgctccttgcagCGTTGTTTGACTGCTGCAAAATTGAAGGAGCGATTTGACTTTTTCTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG