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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataatatatccccacttcttgcactttgaagttcatttctctttgctcatgataaaaataaagatatacgacaaaacaaagatgatcccggcagtaagtatactgcactagtgaattgaacggcgtttggtggtggccgatgtctagATTTCGGAGGGTGAGGCGTCATCCAACCCTAAGCGGAGCAAAGGGGAAGCTGATCGAGGTGATAAAGAAACGAAAGAGGATAATACCAAGTCTAGTGAAA

Basic information

species Physcomitrella patens
transcript PP1S226_51V6.2
intron # 1
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|162154153|gb|FC330596.1|FC330596
EST:     GCTATCGCAGCAAGAGGAAGCAGCAGGATCCGTCGTCTCCAGACCCTAAG                         ATTTCGGAGGGTGAGGCGTCATCCAACCCTAAGCGGAGCAAAGGGGAAGCT
genomic: GCTATCGCAGCAAGAGGAAGCAGCAGGATCCGTCGTCTCCAGACCCTAAGgtaataatat ... cgatgtctagATTTCGGAGGGTGAGGCGTCATCCAACCCTAAGCGGAGCAAAGGGGAAGCT
EST: gi|162175047|gb|FC351947.1|FC351947
EST:     GCTATCGCAGCAAGAGGAAGCAGCAGGATCCGTCGTCTCCAGACCCTAAG                         ATTTCGGAGGGTGAGGCGTCATCCAACCCTAAGCGGAGCAAAGGGGAAGCT
genomic: GCTATCGCAGCAAGAGGAAGCAGCAGGATCCGTCGTCTCCAGACCCTAAGgtaataatat ... cgatgtctagATTTCGGAGGGTGAGGCGTCATCCAACCCTAAGCGGAGCAAAGGGGAAGCT
EST: gi|162178303|gb|FC354709.1|FC354709
EST:     GCTATCGCAGCAAGAGGAAGCAGCAGGATCCGTCGTCTCCAGACCCTAAG                         ATTTCGGAGGGTGAGGCGTCATCCAACCCTAAGCGGAGCAAAGGGGAAGCT
genomic: GCTATCGCAGCAAGAGGAAGCAGCAGGATCCGTCGTCTCCAGACCCTAAGgtaataatat ... cgatgtctagATTTCGGAGGGTGAGGCGTCATCCAACCCTAAGCGGAGCAAAGGGGAAGCT
EST: gi|100419435|gb|BY957574.1|BY957574
EST:     GCTATCGCAGCAAGAGGAAGCAGCAGGATCCGTCGTCTCCAGACCCTAAG                         ATTTCGGAGGGTGAGGCGTCATCCAACCCTAAGCGGAGCAAAGGGGAAGCT
genomic: GCTATCGCAGCAAGAGGAAGCAGCAGGATCCGTCGTCTCCAGACCCTAAGgtaataatat ... cgatgtctagATTTCGGAGGGTGAGGCGTCATCCAACCCTAAGCGGAGCAAAGGGGAAGCT
EST: gi|162255236|gb|FC431546.1|FC431546
EST:     GCTATCGCAGCAAGAGGAAGCAGCAGGATCCGTCGTCTCCAGACCCTAAG                         ATTTCGGAGGGTGAGGCGTCATCCAACCCTAAGCGGAGCAAAGGGGAAGCT
genomic: GCTATCGCAGCAAGAGGAAGCAGCAGGATCCGTCGTCTCCAGACCCTAAGgtaataatat ... cgatgtctagATTTCGGAGGGTGAGGCGTCATCCAACCCTAAGCGGAGCAAAGGGGAAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtaagtatactgcactagtgaattgaacggcgtttggtggtggccgatgtctagATTTCGGAGGGTGAGGCGTCATCCAACCCTAAGCGGAGCAAAGGGGAAGCTGATCGAGGTGATAAAGAAACGAAAGAGGATAATACCAAGTCTAGTGAAA
                     aattgaa  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaataatatatccccacttcttgcactttgaagttcatttctctttgctcatgataaaaataaagatatacgacaaaacaaagatgatcccggcagtaagtatactgcactagtgaattgaacggcgtttggtggtggccgatgtctagATTTCGGAGGGTGAGGCGTCATCCAACCCTAAGCGGAGCAAAGGGGAAGCTGATCGAGGTGATAAAGAAACGAAAGAGGATAATACCAAGTCTAGTGAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT