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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGTTACGGATTACGACTACGTTTTTTCTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaagagtcgcttttcctctcatctctttacgtaggtgccaggttgacttcggaactgcccatttgagttcatggtgcaactacttaagtcaaatctgtgaacgtggggtgacag

Basic information

species Physcomitrella patens
transcript PP1S137_89V6.1
intron # 4
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|37836492|gb|BJ594500.1|BJ594500
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|67695499|gb|BJ955732.1|BJ955732
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|208364031|gb|DC950379.1|DC950379
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|208364746|gb|DC954476.1|DC954476
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|37828269|gb|BJ586281.1|BJ586281
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|208370169|gb|DC944394.1|DC944394
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|208386575|gb|DC952770.1|DC952770
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|208347945|gb|DC921202.1|DC921202
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|208368085|gb|DC947645.1|DC947645
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|37834823|gb|BJ592835.1|BJ592835
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|162275643|gb|FC451645.1|FC451645
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|162211194|gb|FC386906.1|FC386906
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|208362674|gb|DC947165.1|DC947165
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|162201426|gb|FC377152.1|FC377152
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|208380771|gb|DC919459.1|DC919459
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|37837928|gb|BJ595936.1|BJ595936
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|208357863|gb|DC918625.1|DC918625
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|37851718|gb|BJ609726.1|BJ609726
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|37832314|gb|BJ590326.1|BJ590326
EST:     TGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: TGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|208360951|gb|DC946640.1|DC946640
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|18338754|gb|BJ170778.1|BJ170778
EST:     TGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: TGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|208346101|gb|DC917054.1|DC917054
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|208356208|gb|DC946256.1|DC946256
EST:     TGAGAATGGG-TGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: TGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|208366441|gb|DC947609.1|DC947609
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|208385973|gb|DC956811.1|DC956811
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|162250055|gb|FC427364.1|FC427364
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|208358539|gb|DC946500.1|DC946500
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|208360140|gb|DC950169.1|DC950169
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|162250054|gb|FC427363.1|FC427363
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|37827898|gb|BJ585910.1|BJ585910
EST:     NTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|208399394|gb|DC924824.1|DC924824
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|208397251|gb|DC920880.1|DC920880
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|37844098|gb|BJ602106.1|BJ602106
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|162208934|gb|FC385278.1|FC385278
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|37844701|gb|BJ602709.1|BJ602709
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
EST: gi|37826210|gb|BJ584222.1|BJ584222
EST:     CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAG                         AGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT
genomic: CTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTT

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 34 (upstream exon), 26 (downstream exon)
Score: 26

CTGTTACGGATTACGACTACGTTTTTTCTGAGAATGGGTTGGTTGCCCACAAGGCGGGAAAGCTTATCGGAAGCCAGgtgattaaga ... ggggtgacagAGTCTGAAGTCACACTTGGGAGAGGCAAAGTTGAAAGAATTCATCAACTTTGTGCTTCACTACATTGCTGATCTTGATATCCCCATTAAGAG




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