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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCGAGTGAGTGAGAGAGAGGGGATTTTCTTCATTGTGATTTAGCTATGGCGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactacgccatgcacagcctgtggtgaccttgtgttgaatggaagattgagggtccttctgtttttgttttgtttgttttgtatttgctgtgtttggatgttgagggttggaaaggaattgcag

Basic information

species Physcomitrella patens
transcript PP1S46_317V6.1
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|162167971|gb|FC344909.1|FC344909
EST:     CGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAG                         GCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAGGGGAACGGT
genomic: CGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactac ... ggaattgcagGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAGGGGAACGGT
EST: gi|100364030|gb|BY966291.1|BY966291
EST:     CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAG                         GCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAGGGGAACGGT
genomic: CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactac ... ggaattgcagGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAGGGGAACGGT
EST: gi|100446205|gb|CJ970504.1|CJ970504
EST:     CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAG                         GCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAGGGGAACGGT
genomic: CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactac ... ggaattgcagGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAGGGGAACGGT
EST: gi|18349425|gb|BJ181474.1|BJ181474
EST:     CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAG                         GCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAGGGGAACGGT
genomic: CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactac ... ggaattgcagGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAGGGGAACGGT
EST: gi|100437092|gb|BY961347.1|BY961347
EST:     CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAG                         GCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAGGGGAACGGT
genomic: CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactac ... ggaattgcagGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAGGGGAACGGT
EST: gi|18347848|gb|BJ179895.1|BJ179895
EST:     CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAG                         GCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAGGGGAACGGT
genomic: CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactac ... ggaattgcagGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAGGGGAACGGT
EST: gi|100449341|gb|CJ973640.1|CJ973640
EST:     CGCGTACGAAGAANAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGGAATTGCAG                 
genomic: CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAG-CC--CAA-C---AA--GCAGgtactactac ... gg
EST: gi|18368862|gb|BJ200947.1|BJ200947
EST:     CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAG                         GCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAGGGGAACGGT
genomic: CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactac ... ggaattgcagGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAGGGGAACGGT
EST: gi|18347049|gb|BJ179095.1|BJ179095
EST:     CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAG                         GCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAGGGGAACGGT
genomic: CGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactac ... ggaattgcagGCAAGTGAGTATGGCGCGGAGGTGGAGATGGAGGACGCCGAGGGGAACGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCGAGTGAGTGAGAGAGAGGGGATTTTCTTCATTGTGATTTAGCTATGGCGCGTACGAAGAAGAAGGGAAAGCGCGGCAATAAGAAGCCCAACAAGCAGgtactactacgccatgcacagcctgtggtgaccttgtgttgaatggaagattgagggtccttctgtttttgttttgtttgttttgtatttgctgtgtttggatgttgagggttggaaaggaattgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC