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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctttctatctattgcactcgtgccttccagtttgtacttagaacgatgagacaatcgactacaagacctctgaatcattctgcaataatgaaatctttgaaatatctcctcaacgcgctcatattgttgcgtaacgtgcagGTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGCGGACTGATGGAGGAACAACTTCTGGGTCCACGGTGATTGCTTTGGCAGG

Basic information

species Physcomitrella patens
transcript PP1S93_184V6.1
intron # 6
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|162161717|gb|FC338183.1|FC338183
EST:     GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAG                         GTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
genomic: GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAGgtctttctat ... taacgtgcagGTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
EST: gi|208394925|gb|DC915662.1|DC915662
EST:     GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAG                         GTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
genomic: GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAGgtctttctat ... taacgtgcagGTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
EST: gi|7583310|gb|AW699474.1|AW699474
EST:     AGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAG                         GTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
genomic: AGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAGgtctttctat ... taacgtgcagGTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
EST: gi|208375837|gb|DC926929.1|DC926929
EST:     GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAG                         GTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
genomic: GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAGgtctttctat ... taacgtgcagGTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
EST: gi|37846441|gb|BJ604449.1|BJ604449
EST:     GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAG                         GTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
genomic: GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAGgtctttctat ... taacgtgcagGTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
EST: gi|37843989|gb|BJ601997.1|BJ601997
EST:     GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAG                         GTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
genomic: GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAGgtctttctat ... taacgtgcagGTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
EST: gi|208346193|gb|DC917146.1|DC917146
EST:     GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAG                         GTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
genomic: GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAGgtctttctat ... taacgtgcagGTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
EST: gi|162190450|gb|FC365672.1|FC365672
EST:     GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAG                         GTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
genomic: GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAGgtctttctat ... taacgtgcagGTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
EST: gi|162236910|gb|FC412653.1|FC412653
EST:     GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAG                         GTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
genomic: GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAGgtctttctat ... taacgtgcagGTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
EST: gi|162174135|gb|FC350338.1|FC350338
EST:     GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAG                         GTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
genomic: GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAGgtctttctat ... taacgtgcagGTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
EST: gi|18337522|gb|BJ169546.1|BJ169546
EST:     GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAG                         GTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
genomic: GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAGgtctttctat ... taacgtgcagGTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
EST: gi|208345074|gb|DC925428.1|DC925428
EST:     GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAG                         GTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
genomic: GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAGgtctttctat ... taacgtgcagGTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
EST: gi|162174136|gb|FC350339.1|FC350339
EST:     GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAG                         GTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
genomic: GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAGgtctttctat ... taacgtgcagGTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
EST: gi|18341602|gb|BJ173637.1|BJ173637
EST:     GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAG                         GTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC
genomic: GATGCAGTCCAAGGAGGCATGGTGGGCTGAGACTGTGGGTGCATCTGCAGgtctttctat ... taacgtgcagGTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgaaatctttgaaatatctcctcaacgcgctcatattgttgcgtaacgtgcagGTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGCGGACTGATGGAGGAACAACTTCTGGGTCCACGGTGATTGCTTTGGCAGG
                                          gcgtaac  putative branch site (score: 3)
     aatctttgaaatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctttctatctattgcactcgtgccttccagtttgtacttagaacgatgagacaatcgactacaagacctctgaatcattctgcaataatgaaatctttgaaatatctcctcaacgcgctcatattgttgcgtaacgtgcagGTGTCACTGTGGGATGCCTACTGGGATTAGCTCCATTGATATTCCTCCAGCGGACTGATGGAGGAACAACTTCTGGGTCCACGGTGATTGCTTTGGCAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA