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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATCCTCCCTCGCGGGTGGTGGTCCGCGCGCTTGCGTCGAAGCCCTGGGCTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcctcttgttggggctcattacttctcctcttcttctttttctcaatgccactgggcttggaatgccttcctttgtgctcttgttctttctca...

Basic information

species Physcomitrella patens
transcript PP1S101_170V6.2
intron # 1
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|100362130|gb|BY966347.1|BY966347
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|18374490|gb|BJ206068.1|BJ206068
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|18350839|gb|BJ182890.1|BJ182890
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|100447629|gb|CJ971928.1|CJ971928
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|67701599|gb|BJ961832.1|BJ961832
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGGA
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGGA
EST: gi|208376645|gb|DC932109.1|DC932109
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|18360844|gb|BJ192907.1|BJ192907
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|100357299|gb|BY983792.1|BY983792
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|18365279|gb|BJ197353.1|BJ197353
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|67712836|gb|BJ966285.1|BJ966285
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|18350558|gb|BJ182609.1|BJ182609
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|100446549|gb|CJ970848.1|CJ970848
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|208360268|gb|DC943012.1|DC943012
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|67718552|gb|BJ968811.1|BJ968811
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|100365424|gb|BY966589.1|BY966589
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|100400204|gb|BY990831.1|BY990831
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|100425961|gb|BY977207.1|BY977207
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|208371115|gb|DC931575.1|DC931575
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|67719511|gb|BJ969770.1|BJ969770
EST:     CAGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|208359545|gb|DC934574.1|DC934574
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|18353895|gb|BJ185950.1|BJ185950
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCC
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCC
EST: gi|67718199|gb|BJ968458.1|BJ968458
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|208377442|gb|DC902771.1|DC902771
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|162154878|gb|FC331920.1|FC331920
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
EST: gi|208390264|gb|DC942015.1|DC942015
EST:     CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCG                         AGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG
genomic: CTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcc ... cgtggtgcagAGTAAGGAGGCTGTGTCATCGTCGTCGTCGAGCCAGGGAGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAATCCTCCCTCGCGGGTGGTGGTCCGCGCGCTTGCGTCGAAGCCCTGGGCTGCGTCCAAGACTCTGCGTCAGGTGGCCGCGCATGCCACGGCTGTTGCGgtgagtctcctcttgttggggctcattacttctcctcttcttctttttctcaatgccactgggcttggaatgccttcctttgtgctcttgttctttctca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT