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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggaagctgacactcttccaccctagagcaattcgttggttgtgttgttagactattttggtcagtttaattctagtgtgtatgtagtcatgaaatcatcgaatacatgtgctttgtacaaaacgaaacttttcaaagactaagatattcggagatgtgggcgggtgcagAATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAATCGGTGGGTTTCTGAAAGGGGGGAATTTTCAAGAGGCCTCAGAAGCACTG

Basic information

species Physcomitrella patens
transcript PP1S91_219V6.2
intron # 4
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|162174520|gb|FC350799.1|FC350799
EST:     GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAG                         AATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
genomic: GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAGgtgggaagct ... gcgggtgcagAATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
EST: gi|162174519|gb|FC350798.1|FC350798
EST:     GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAG                         AATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
genomic: GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAGgtgggaagct ... gcgggtgcagAATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
EST: gi|162158307|gb|FC334726.1|FC334726
EST:     GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAG                         AATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
genomic: GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAGgtgggaagct ... gcgggtgcagAATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
EST: gi|37853085|gb|BJ611093.1|BJ611093
EST:     GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAG                         AATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
genomic: GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAGgtgggaagct ... gcgggtgcagAATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
EST: gi|162195595|gb|FC371896.1|FC371896
EST:     GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAG                         AATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
genomic: GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAGgtgggaagct ... gcgggtgcagAATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
EST: gi|37851126|gb|BJ609134.1|BJ609134
EST:     GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAG                         AATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
genomic: GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAGgtgggaagct ... gcgggtgcagAATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
EST: gi|162161453|gb|FC336827.1|FC336827
EST:     GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAG                         AATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
genomic: GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAGgtgggaagct ... gcgggtgcagAATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
EST: gi|162195594|gb|FC371895.1|FC371895
EST:     GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTTTAAGCAG                         AATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
genomic: GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAGgtgggaagct ... gcgggtgcagAATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
EST: gi|18339353|gb|BJ171380.1|BJ171380
EST:     GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAG                         AATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
genomic: GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAGgtgggaagct ... gcgggtgcagAATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
EST: gi|162211995|gb|FC388457.1|FC388457
EST:     GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAG                         AATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
genomic: GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAGgtgggaagct ... gcgggtgcagAATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
EST: gi|208395853|gb|DC924263.1|DC924263
EST:     GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAG                         AATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
genomic: GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAGgtgggaagct ... gcgggtgcagAATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
EST: gi|162161298|gb|FC337556.1|FC337556
EST:     GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAG                         AATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
genomic: GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAGgtgggaagct ... gcgggtgcagAATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
EST: gi|18340808|gb|BJ172839.1|BJ172839
EST:     GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAG                         AATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
genomic: GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAGgtgggaagct ... gcgggtgcagAATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
EST: gi|162161467|gb|FC336828.1|FC336828
EST:     GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAG                         AATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT
genomic: GTGTGTGGATTTGGAAACCATCGAGAGGCTGCCTTTCGTGTTCTAAGCAGgtgggaagct ... gcgggtgcagAATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacaaaacgaaacttttcaaagactaagatattcggagatgtgggcgggtgcagAATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAATCGGTGGGTTTCTGAAAGGGGGGAATTTTCAAGAGGCCTCAGAAGCACTG
                         taagatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgggaagctgacactcttccaccctagagcaattcgttggttgtgttgttagactattttggtcagtttaattctagtgtgtatgtagtcatgaaatcatcgaatacatgtgctttgtacaaaacgaaacttttcaaagactaagatattcggagatgtgggcgggtgcagAATGGAGGCTCTGGGTCTTATGCCAGTGAAGAAAACGTACACCGTCTTAATCGGTGGGTTTCTGAAAGGGGGGAATTTTCAAGAGGCCTCAGAAGCACTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC