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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gggttttcaaagaaaaattctcgaaacgttttcgtagcattggtcatgacacacaaagattcgtgtgatgggctctgaatcttctttatcatcattgcagAAAAGGAGAACTTGTGTTTGTATGGTTTCCCGGACGAAGCCTGGGAAGTAAATTTACCAGCGGAGGAGGTTCCACCTGAACTTCCTGAACCTGCACTTGG

Basic information

species Physcomitrella patens
transcript PP1S262_27V6.1
intron # 2
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|208369927|gb|DC931504.1|DC931504
EST:     ATGTCNAANAGTTTTATCTGCAGTGTGATCCAN                         AAAANGAGAACTTGTGTTTGTATGGTTTCCCGGACGAAGCCTGGGAAGTAA
genomic: ATGTCGAAGAGTTTTATCTGCAGTGTGATCCAGgtgagggttt ... atcattgcagAAAAGGAGAACTTGTGTTTGTATGGTTTCCCGGACGAAGCCTGGGAAGTAA
EST: gi|100436873|gb|BY979568.1|BY979568
EST:     ATGTCGAAGAGTTTTATCTGCAGTGTGATCCAG                         AAAAGGAGAACTTGTGTTTGTATGGTTTCCCGGACGAAGCCTGGGAAGTAA
genomic: ATGTCGAAGAGTTTTATCTGCAGTGTGATCCAGgtgagggttt ... atcattgcagAAAAGGAGAACTTGTGTTTGTATGGTTTCCCGGACGAAGCCTGGGAAGTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgacacacaaagattcgtgtgatgggctctgaatcttctttatcatcattgcagAAAAGGAGAACTTGTGTTTGTATGGTTTCCCGGACGAAGCCTGGGAAGTAAATTTACCAGCGGAGGAGGTTCCACCTGAACTTCCTGAACCTGCACTTGG
                                  tcttctttatcatc  CT-rich tract
                                    ttctttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gggttttcaaagaaaaattctcgaaacgttttcgtagcattggtcatgacacacaaagattcgtgtgatgggctctgaatcttctttatcatcattgcagAAAAGGAGAACTTGTGTTTGTATGGTTTCCCGGACGAAGCCTGGGAAGTAAATTTACCAGCGGAGGAGGTTCCACCTGAACTTCCTGAACCTGCACTTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG