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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatgtacgcctgaacgtgaaggtagggctaaatctcagagtcatgtatgtacatcgatgtttcgtgaatttggcttacaatttgacctggttgtgagtagAATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTATGGCACTCTCTTACAGCGCTGGTCGAGCTGGTGGAACGATGACTGGTGTA

Basic information

species Physcomitrella patens
transcript PP1S62_157V6.1
intron # 10
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|162156415|gb|FC332647.1|FC332647
EST:     GAGCGCATTTCCTGTTCAGAGAAGACCTGGCCTCGTCTGGACTTTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTAT
genomic: GAGCGCATTTCCTGTTCAGAGAAGACCTGGCCTCGTCTGGACTTTTTCAAgtaagtttat ... ttgtgagtagAATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTAT
EST: gi|37826113|gb|BJ584125.1|BJ584125
EST:     GAGCGCATTTCCTGTTCAGAGAAGACCTGGCCTCGTCTGGACTTTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTAT
genomic: GAGCGCATTTCCTGTTCAGAGAAGACCTGGCCTCGTCTGGACTTTTTCAAgtaagtttat ... ttgtgagtagAATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTAT
EST: gi|18336329|gb|BJ168351.1|BJ168351
EST:     TGGACTTTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTAT
genomic: TGGACTTTTTCAAgtaagtttat ... ttgtgagtagAATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTAT
EST: gi|162203496|gb|FC380412.1|FC380412
EST:     GAGCGCATTTCCTGTTCAGAGAAGACCTGGCCTCGTCTGGACTTTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTAT
genomic: GAGCGCATTTCCTGTTCAGAGAAGACCTGGCCTCGTCTGGACTTTTTCAAgtaagtttat ... ttgtgagtagAATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTAT
EST: gi|162272850|gb|FC448006.1|FC448006
EST:     GAGCGCATTTCCTGTTCAGAGAAGACCTGGCCTCGTCTGGACTTTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTAT
genomic: GAGCGCATTTCCTGTTCAGAGAAGACCTGGCCTCGTCTGGACTTTTTCAAgtaagtttat ... ttgtgagtagAATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTAT
EST: gi|162185513|gb|FC361237.1|FC361237
EST:     GAGCGCATTTCCTGTTCAGAGAAGACCTGGCCTCGTCTGGACTTTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTAT
genomic: GAGCGCATTTCCTGTTCAGAGAAGACCTGGCCTCGTCTGGACTTTTTCAAgtaagtttat ... ttgtgagtagAATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTAT
EST: gi|162203495|gb|FC380411.1|FC380411
EST:     GTCTGGACTTTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTAT
genomic: GTCTGGACTTTTTCAAgtaagtttat ... ttgtgagtagAATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTAT
EST: gi|208382561|gb|DC919771.1|DC919771
EST:     GAGCGCATTTCCTGTTCAGAGAAGACCTGGCCTCGTCTGGAC-TTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTAT
genomic: GAGCGCATTTCCTGTTCAGAGAAGACCTGGCCTCGTCTGGACTTTTTCAAgtaagtttat ... ttgtgagtagAATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTAT
EST: gi|162179791|gb|FC356382.1|FC356382
EST:     GAGCGCATTTCCTGTTCAGAGAAGACCTGGCCTCGTCTGGACTTTTTCAA                         AATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTAT
genomic: GAGCGCATTTCCTGTTCAGAGAAGACCTGGCCTCGTCTGGACTTTTTCAAgtaagtttat ... ttgtgagtagAATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgtacatcgatgtttcgtgaatttggcttacaatttgacctggttgtgagtagAATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTATGGCACTCTCTTACAGCGCTGGTCGAGCTGGTGGAACGATGACTGGTGTA
                             ttacaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatgtacgcctgaacgtgaaggtagggctaaatctcagagtcatgtatgtacatcgatgtttcgtgaatttggcttacaatttgacctggttgtgagtagAATGGGAAATCTTACTTTCATGAAGCCCGACCACGCAAAATATCCCTCTATGGCACTCTCTTACAGCGCTGGTCGAGCTGGTGGAACGATGACTGGTGTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA