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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCAAGCAGATGTTGGAACATGCACAGAGGCGGAGCGCATAGTTAAAGAAACAGTTAAACGCTTCGGTGATAAGATTCATGTGCTCATCAACAATGCTGgtatgattcaaatccattgttgccttacccgtaggcaactacgctttgctcacttgttaattaatgtcacttgaatgaaaggtgtctagatccaggattg...

Basic information

species Physcomitrella patens
transcript PP1S488_11V6.2
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|208398309|gb|DC920708.1|DC920708
EST:     GTGATAAGATTCATGTGNTCATCAACCATGCTG                         CAAAA-TTCCTCATAGTGGAGAAGCCGATCCATTGAAGGAGTTCACAGACA
genomic: GTGATAAGATTCATGTGCTCATCAACAATGCTGgtatgattca ... tgtttatcagCAAAACTTCCTCATAGTGGAGAAGCCGATCCATTGAAGGAGTTCACAGACA
EST: gi|18324781|gb|BJ156776.1|BJ156776
EST:     AACAGTTAAACGCTTCGGTGATAAGATTCATGTGCTCATCAACAATGCTG                         CAAAACTTCCTCATAGTGGAGAAGCCGATCCATTGAAGGAGTTCACAGACA
genomic: AACAGTTAAACGCTTCGGTGATAAGATTCATGTGCTCATCAACAATGCTGgtatgattca ... tgtttatcagCAAAACTTCCTCATAGTGGAGAAGCCGATCCATTGAAGGAGTTCACAGACA
EST: gi|208376880|gb|DC906835.1|DC906835
EST:     AACAGTTAAACGCTTCGGTGATAAGATTCATGTGCTCATCAACAATGCTG                         CAAAACTTCCTCATAGTGGAGAAGCCGATCCATTGAAGGAGTTCACAGACA
genomic: AACAGTTAAACGCTTCGGTGATAAGATTCATGTGCTCATCAACAATGCTGgtatgattca ... tgtttatcagCAAAACTTCCTCATAGTGGAGAAGCCGATCCATTGAAGGAGTTCACAGACA
EST: gi|162262858|gb|FC439277.1|FC439277
EST:     AACAGTTAAACGCTTCGGTGATAAGATTCATGTGCTCATCAACAATGCTG                         CAAAACTTCCTCATAGTGGAGAAGCCGATCCATTGAAGGAGTTCACAGACA
genomic: AACAGTTAAACGCTTCGGTGATAAGATTCATGTGCTCATCAACAATGCTGgtatgattca ... tgtttatcagCAAAACTTCCTCATAGTGGAGAAGCCGATCCATTGAAGGAGTTCACAGACA
EST: gi|100383633|gb|BY969162.1|BY969162
EST:     AACAGTTAAACGCTTCGGTGATAAGATTCATGTGCTCATCAACAATGCTG                         CAAAACTTCCTCATAGTGGAGAAGCCGATCCATTGAAGGAGTTCACAGACA
genomic: AACAGTTAAACGCTTCGGTGATAAGATTCATGTGCTCATCAACAATGCTGgtatgattca ... tgtttatcagCAAAACTTCCTCATAGTGGAGAAGCCGATCCATTGAAGGAGTTCACAGACA
EST: gi|162262857|gb|FC439276.1|FC439276
EST:     CAACAATGCTG                         CAAAACTTCCTCATAGTGGAGAAGCCGATCCATTGAAGGAGTTCACAGACA
genomic: CAACAATGCTGgtatgattca ... tgtttatcagCAAAACTTCCTCATAGTGGAGAAGCCGATCCATTGAAGGAGTTCACAGACA
EST: gi|208362168|gb|DC943553.1|DC943553
EST:     AACAGTTAAACGCTTCGGTGATAAGATTCATGTGCTCATCAACAATGCTG                         CAAAACTTCCTCATAGTGGAGAAGCCGATCCATTGAAGGAGTTCACAGACA
genomic: AACAGTTAAACGCTTCGGTGATAAGATTCATGTGCTCATCAACAATGCTGgtatgattca ... tgtttatcagCAAAACTTCCTCATAGTGGAGAAGCCGATCCATTGAAGGAGTTCACAGACA
EST: gi|18364080|gb|BJ196153.1|BJ196153
EST:     AACAGTTAAACGCTTCGGTGATAAGATTCATGTGCTCATCAACAATGCTG                         CAAAACTTCCTCATAGTGGAGAAGCCGATCCATTGAAGGAGTTCACAGACA
genomic: AACAGTTAAACGCTTCGGTGATAAGATTCATGTGCTCATCAACAATGCTGgtatgattca ... tgtttatcagCAAAACTTCCTCATAGTGGAGAAGCCGATCCATTGAAGGAGTTCACAGACA
EST: gi|67575819|gb|BJ948643.1|BJ948643
EST:     AACAGTTAAACGCTTCGGTGATAAGATTCATGTGCTCATCAACAATGCTG                         CAAAACTTCCTCATAGTGGAGAAGCCGATCCATTGAAGGAGTTCACAGACA
genomic: AACAGTTAAACGCTTCGGTGATAAGATTCATGTGCTCATCAACAATGCTGgtatgattca ... tgtttatcagCAAAACTTCCTCATAGTGGAGAAGCCGATCCATTGAAGGAGTTCACAGACA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGCAAGCAGATGTTGGAACATGCACAGAGGCGGAGCGCATAGTTAAAGAAACAGTTAAACGCTTCGGTGATAAGATTCATGTGCTCATCAACAATGCTGgtatgattcaaatccattgttgccttacccgtaggcaactacgctttgctcacttgttaattaatgtcacttgaatgaaaggtgtctagatccaggattg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG