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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcaataatttactagcattgccttgtgtgagccaacttacgtcttagatttttttgtttcctgcagctaacacactcgtcataaattgaaattttcatagGTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTAGCTTCGAGGAGGAGGACGACAAACACAGCTTTTCGGCCTTCACTTCATT

Basic information

species Physcomitrella patens
transcript PP1S96_95V6.1
intron # 14
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|18340996|gb|BJ173028.1|BJ173028
EST:     TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAG                         GTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
genomic: TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAGgtatagagag ... attttcatagGTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
EST: gi|18340969|gb|BJ173001.1|BJ173001
EST:     TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAG                         GTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
genomic: TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAGgtatagagag ... attttcatagGTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
EST: gi|37831735|gb|BJ589747.1|BJ589747
EST:     TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAG                         GTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
genomic: TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAGgtatagagag ... attttcatagGTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
EST: gi|37836451|gb|BJ594459.1|BJ594459
EST:     TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAG                         GTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
genomic: TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAGgtatagagag ... attttcatagGTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
EST: gi|37849375|gb|BJ607383.1|BJ607383
EST:     TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAG                         GTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
genomic: TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAGgtatagagag ... attttcatagGTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
EST: gi|37843389|gb|BJ601397.1|BJ601397
EST:     TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAG                         GTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
genomic: TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAGgtatagagag ... attttcatagGTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
EST: gi|162271342|gb|FC446915.1|FC446915
EST:     TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAG                         GTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
genomic: TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAGgtatagagag ... attttcatagGTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
EST: gi|37830698|gb|BJ588710.1|BJ588710
EST:     TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAG                         GTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
genomic: TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAGgtatagagag ... attttcatagGTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
EST: gi|37851075|gb|BJ609083.1|BJ609083
EST:     TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAG                         GTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
genomic: TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAGgtatagagag ... attttcatagGTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
EST: gi|162271343|gb|FC446916.1|FC446916
EST:     GGTGGTCTAGACATCTCATCAGCAATTAAAGTTTTGCGTGATTCAGCGAGAGGGATGGATTTTCTGCACAA     
genomic: GGTGGTCTAGACATCTCATCAGCAATTAAAGTTTTGCGTGATTCAGCGAGAGGGATGGATTTTCTGCACAAgtaag
EST: gi|37841455|gb|BJ599463.1|BJ599463
EST:     TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAG                         GTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
genomic: TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAGgtatagagag ... attttcatagGTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
EST: gi|37822950|gb|BJ581016.1|BJ581016
EST:     TGCAAAGATGTNGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAG                         GTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
genomic: TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAGgtatagagag ... attttcatagGTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
EST: gi|37850666|gb|BJ608674.1|BJ608674
EST:     TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAG                         GTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA
genomic: TGCAAAGATGTTGGAATAAAGACCCGCAGGAAAGGCCCGAATTCAGCGAGgtatagagag ... attttcatagGTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatttttttgtttcctgcagctaacacactcgtcataaattgaaattttcatagGTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTAGCTTCGAGGAGGAGGACGACAAACACAGCTTTTCGGCCTTCACTTCATT
                   agctaac  putative branch site (score: 2)
                                              ttttcat  putative PPT
                                 tcataaattgaaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcaataatttactagcattgccttgtgtgagccaacttacgtcttagatttttttgtttcctgcagctaacacactcgtcataaattgaaattttcatagGTACTTAGCACACTTGAGAATATGGTCATCCCAACGACTTCGAGGAGAGTAGCTTCGAGGAGGAGGACGACAAACACAGCTTTTCGGCCTTCACTTCATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA