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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCGACTGTTGAAGGATTTAAGCCAATATGCACAGATTCGTTTGCTGGAAACTTGAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAGgtcagtacatataatcgcttgatgtcagtctcggtgcccttagatgtgtcgtatacgtgtcgccctactacctaacaggttgtgaagtagtgaaaacggc...

Basic information

species Physcomitrella patens
transcript PP1S9_51V6.2
intron # 9
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|37829336|gb|BJ587348.1|BJ587348
EST:     ACTTGAAGCTTCAGCCTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAG                         GTTCTTTTGGAGGCCACAAGCAGCATGTGTGCGTTGGAGACTGGTGGTTCA
genomic: ACTTGAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAGgtcagtacat ... ttcctcccagGTTCTTTTGGAGGCCACAAGCAGCATGTGTGCGTTGGAGACTGGTGGTTCA
EST: gi|67724482|gb|BJ974741.1|BJ974741
EST:     ACTTGAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAG                         GTTCTTTTGGAGGCCACAAGCAGCATGTGTGCGTTGGAGACTGGTGGTTCA
genomic: ACTTGAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAGgtcagtacat ... ttcctcccagGTTCTTTTGGAGGCCACAAGCAGCATGTGTGCGTTGGAGACTGGTGGTTCA
EST: gi|37853415|gb|BJ611423.1|BJ611423
EST:     ACTTGAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAG                         GTTCTTTTGGAGGCCACAAGCAGCATGTGTGCGTTGGAGACTGGTGGTTCA
genomic: ACTTGAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAGgtcagtacat ... ttcctcccagGTTCTTTTGGAGGCCACAAGCAGCATGTGTGCGTTGGAGACTGGTGGTTCA
EST: gi|37851950|gb|BJ609958.1|BJ609958
EST:     GAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAG                         GTTCTTTNGGAGGCCACAAGCAGCATGTGTGCGTTGGAGACTGGTGGTTCA
genomic: GAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAGgtcagtacat ... ttcctcccagGTTCTTTTGGAGGCCACAAGCAGCATGTGTGCGTTGGAGACTGGTGGTTCA
EST: gi|22131617|gb|BQ826706.1|BQ826706
EST:     ACTTGAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAG                         GTTCTTTTGGAGGCCACAAGCAGCATGTGTGCGTTGGAGACTGGTGGTTCA
genomic: ACTTGAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAGgtcagtacat ... ttcctcccagGTTCTTTTGGAGGCCACAAGCAGCATGTGTGCGTTGGAGACTGGTGGTTCA
EST: gi|37838736|gb|BJ596744.1|BJ596744
EST:     ACTTGAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAG                         GTTCTTTTGGAGGCCACAAGCAGCATGTGTGCGTTGGAGACTGGTGGTTCA
genomic: ACTTGAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAGgtcagtacat ... ttcctcccagGTTCTTTTGGAGGCCACAAGCAGCATGTGTGCGTTGGAGACTGGTGGTTCA
EST: gi|37847826|gb|BJ605834.1|BJ605834
EST:     ACTTGAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAG                         GTTCTTTTGGAGGCCACAAGCAGCATGTGTGCGTTGGAGACTGGTGGTTCA
genomic: ACTTGAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAGgtcagtacat ... ttcctcccagGTTCTTTTGGAGGCCACAAGCAGCATGTGTGCGTTGGAGACTGGTGGTTCA
EST: gi|208366950|gb|DC951437.1|DC951437
EST:     ACTTGAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAG                         GTTCTTTTGGAGGCCACAAGCAGCATGTGTGCGTTGGAGACTGGTGGTTCA
genomic: ACTTGAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAGgtcagtacat ... ttcctcccagGTTCTTTTGGAGGCCACAAGCAGCATGTGTGCGTTGGAGACTGGTGGTTCA
EST: gi|37839619|gb|BJ597627.1|BJ597627
EST:     ACTTGAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAG                         GTTCTTTTGGAGGCCACAAGCAGCATGTGTGCGTTGGAGACTGGTGGTTCA
genomic: ACTTGAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAGgtcagtacat ... ttcctcccagGTTCTTTTGGAGGCCACAAGCAGCATGTGTGCGTTGGAGACTGGTGGTTCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCCGACTGTTGAAGGATTTAAGCCAATATGCACAGATTCGTTTGCTGGAAACTTGAAGCTTCAGCTTTGGGAACGTAATGCAAATGGTAGCCTCGGGAAGgtcagtacatataatcgcttgatgtcagtctcggtgcccttagatgtgtcgtatacgtgtcgccctactacctaacaggttgtgaagtagtgaaaacggc

- - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT