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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGTTCAGTGGCGGACTGCTTATGTACATTGCGTATGATCTCACGCACTATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAGgtatgcctctgcaacgaaaaactatccatgtactttcgaacttcactattgacaactcttcattcatgtggtttcgaggtatcgtaaataagcgcaaagttttagaaaattgaaactgatttagtaatccacccctcgtgcatctgcag

Basic information

species Physcomitrella patens
transcript PP1S69_244V6.4
intron # 7
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|37827009|gb|BJ585021.1|BJ585021
EST:     ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAG                         AGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
genomic: ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAGgtatgcctct ... gcatctgcagAGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
EST: gi|37830893|gb|BJ588905.1|BJ588905
EST:     ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAG                         AGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
genomic: ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAGgtatgcctct ... gcatctgcagAGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
EST: gi|37829281|gb|BJ587293.1|BJ587293
EST:     ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAG                         AGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
genomic: ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAGgtatgcctct ... gcatctgcagAGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
EST: gi|208349200|gb|DC917978.1|DC917978
EST:     ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAG                         AGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
genomic: ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAGgtatgcctct ... gcatctgcagAGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
EST: gi|208395788|gb|DC920294.1|DC920294
EST:     ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAG                         AGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
genomic: ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAGgtatgcctct ... gcatctgcagAGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
EST: gi|37834513|gb|BJ592525.1|BJ592525
EST:     ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAG                         AGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
genomic: ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAGgtatgcctct ... gcatctgcagAGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
EST: gi|208356663|gb|DC922453.1|DC922453
EST:     ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAG                         AGGCTACACTTNGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
genomic: ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAGgtatgcctct ... gcatctgcagAGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
EST: gi|37828862|gb|BJ586874.1|BJ586874
EST:     ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAG                         AGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
genomic: ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAGgtatgcctct ... gcatctgcagAGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
EST: gi|208383531|gb|DC923683.1|DC923683
EST:     ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAG                         AGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
genomic: ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAGgtatgcctct ... gcatctgcagAGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
EST: gi|37837345|gb|BJ595353.1|BJ595353
EST:     ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAG                         AGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
genomic: ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAGgtatgcctct ... gcatctgcagAGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
EST: gi|37833596|gb|BJ591608.1|BJ591608
EST:     ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAG                         AGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
genomic: ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAGgtatgcctct ... gcatctgcagAGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
EST: gi|37824620|gb|BJ582686.1|BJ582686
EST:     ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAG                         AGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
genomic: ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAGgtatgcctct ... gcatctgcagAGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
EST: gi|37830358|gb|BJ588370.1|BJ588370
EST:     ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAG                         AGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
genomic: ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAGgtatgcctct ... gcatctgcagAGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
EST: gi|37825231|gb|BJ583297.1|BJ583297
EST:     ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAG                         AGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
genomic: ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAGgtatgcctct ... gcatctgcagAGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
EST: gi|37828004|gb|BJ586016.1|BJ586016
EST:     ATTTTCTTCACTTCGACACACCTACTAACGAAATGTCACGCAAGCTGAAG                         AGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC
genomic: ATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAGgtatgcctct ... gcatctgcagAGGCTACACTTTGACCACCACTTTAAAGACCAAAGTACAAGTTTCGGAGTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATGTTCAGTGGCGGACTGCTTATGTACATTGCGTATGATCTCACGCACTATTTTCTTCACTTCGGCACACCTACTAACGAAATGTCACGCAAGCTGAAGgtatgcctctgcaacgaaaaactatccatgtactttcgaacttcactattgacaactcttcattcatgtggtttcgaggtatcgtaaataagcgcaaagttttagaaaattgaaactgatttagtaatccacccctcgtgcatctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG