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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacgaacaattttgactactttcccttgctgtgactcgcctgtatatcagcttgtttaaacgaggaagataatccttattacaaatccctattgt...

Basic information

species Physcomitrella patens
transcript PP1S4_12V6.1
intron # 2
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|100414742|gb|BY956841.1|BY956841
EST:     CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG                         GTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
genomic: CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacga ... ggatccgcagGTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
EST: gi|67718841|gb|BJ969100.1|BJ969100
EST:     CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG                         GTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
genomic: CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacga ... ggatccgcagGTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
EST: gi|162159187|gb|FC334358.1|FC334358
EST:     CCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG                         GTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
genomic: CCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacga ... ggatccgcagGTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
EST: gi|67571702|gb|BJ944526.1|BJ944526
EST:     CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG                         GTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
genomic: CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacga ... ggatccgcagGTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
EST: gi|100375450|gb|BY948872.1|BY948872
EST:     CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG                         GTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
genomic: CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacga ... ggatccgcagGTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
EST: gi|18371464|gb|BJ203066.1|BJ203066
EST:     CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG                         GTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
genomic: CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacga ... ggatccgcagGTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
EST: gi|67568839|gb|BJ941663.1|BJ941663
EST:     CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG                         GTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
genomic: CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacga ... ggatccgcagGTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
EST: gi|18354475|gb|BJ186531.1|BJ186531
EST:     CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG                         GTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
genomic: CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacga ... ggatccgcagGTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
EST: gi|18348776|gb|BJ180825.1|BJ180825
EST:     CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG                         GTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
genomic: CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacga ... ggatccgcagGTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
EST: gi|208351568|gb|DC909998.1|DC909998
EST:     CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG                         GTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
genomic: CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacga ... ggatccgcagGTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
EST: gi|162257953|gb|FC433839.1|FC433839
EST:     CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG                         GTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
genomic: CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacga ... ggatccgcagGTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
EST: gi|67717090|gb|BJ967349.1|BJ967349
EST:     CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG                         GTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
genomic: CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacga ... ggatccgcagGTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
EST: gi|100437911|gb|BY961558.1|BY961558
EST:     CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG                         GTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
genomic: CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacga ... ggatccgcagGTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
EST: gi|18363906|gb|BJ195978.1|BJ195978
EST:     CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG                         GTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
genomic: CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacga ... ggatccgcagGTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
EST: gi|18368891|gb|BJ200976.1|BJ200976
EST:     CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG                         GTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
genomic: CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacga ... ggatccgcagGTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
EST: gi|67570443|gb|BJ943267.1|BJ943267
EST:     CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG                         GTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
genomic: CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacga ... ggatccgcagGTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
EST: gi|18347743|gb|BJ179790.1|BJ179790
EST:     CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAG                         GTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC
genomic: CTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacga ... ggatccgcagGTGACAGTGTTTAAGCAGGACCATTACCTTGCCAACTTTGTGCAAGCCACC

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGCTTGAAGGATGGTGCTCTTTAAAGTTGTGAAGCAGGAGACTAAGGCGATCGATGGCCAAAAGCCTGGTACCTCTGGTTTGCGTAAGAAGgtgcatacgaacaattttgactactttcccttgctgtgactcgcctgtatatcagcttgtttaaacgaggaagataatccttattacaaatccctattgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG