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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cattgtaaagtttgaggagtttcgaatcttgatttaggagttggaggattctgatatgtgacgaattgcatctaactgattttttttgccttggtaatagCTGATGGAAGCTCACAGTGGGCATTACCGGCCGAGCCCAGAGAATTTTGAGGCGCTTGTTAGGAAATTGATTGCTAGTGGGGCTGATTTGTCCTTGGCTA

Basic information

species Physcomitrella patens
transcript PP1S91_220V6.3
intron # 8
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|208353053|gb|DC921839.1|DC921839
EST:     GCGCCACGACTGCTGCCGGCCGCCTTGTCGTCAATCACGGAGTCTTAAAG                         CTGATGGAAGCTCACAGTGGGCATTACCGGCCGAGCCCAGAGAATTTTGAG
genomic: GCGCCACGACTGCTGCCGGCCGCCTTGTCGTCAATCACGGAGTCTTAAAGgtaggaccgt ... ttggtaatagCTGATGGAAGCTCACAGTGGGCATTACCGGCCGAGCCCAGAGAATTTTGAG
EST: gi|162151697|gb|FC327826.1|FC327826
EST:     GCGCCACGACTGCTGCCGGCCGCCTTGTCGTCAATCACGGAGTCTTAAAG                         CTGATGGAAGCTCACAGTGGGCATTACCGGCCGAGCCCAGAGAATTTTGAG
genomic: GCGCCACGACTGCTGCCGGCCGCCTTGTCGTCAATCACGGAGTCTTAAAGgtaggaccgt ... ttggtaatagCTGATGGAAGCTCACAGTGGGCATTACCGGCCGAGCCCAGAGAATTTTGAG
EST: gi|67726432|gb|BJ976691.1|BJ976691
EST:     GCGCCACGACTGCTGCCGGCCGCCTTGTCGTCAATCACGGAGTCTTAAAG                         CTGATGGAAGCTCACAGTGGGCATTACCGGCCGAGCCCAGAGAATTTTGAG
genomic: GCGCCACGACTGCTGCCGGCCGCCTTGTCGTCAATCACGGAGTCTTAAAGgtaggaccgt ... ttggtaatagCTGATGGAAGCTCACAGTGGGCATTACCGGCCGAGCCCAGAGAATTTTGAG
EST: gi|208350802|gb|DC925933.1|DC925933
EST:     GCGCCACGACTGCTGCCGGCCGCCTTGTCGTCAATCACGGAGTCTTAAAG                         CTGATGGAAGCTCACAGTGGGCATTACCGGCCGAGCCCAGAGAATTTTGAG
genomic: GCGCCACGACTGCTGCCGGCCGCCTTGTCGTCAATCACGGAGTCTTAAAGgtaggaccgt ... ttggtaatagCTGATGGAAGCTCACAGTGGGCATTACCGGCCGAGCCCAGAGAATTTTGAG
EST: gi|208390108|gb|DC945971.1|DC945971
EST:     GCGCCACGACTGCTGCCGGCCGCCTTGTCGTCAATCACGGAGTCTTAAAG                         CTGATGGAAGCTCACAGTGGGCATTACCGGCCGAGCCCAGAGAATTTTGAG
genomic: GCGCCACGACTGCTGCCGGCCGCCTTGTCGTCAATCACGGAGTCTTAAAGgtaggaccgt ... ttggtaatagCTGATGGAAGCTCACAGTGGGCATTACCGGCCGAGCCCAGAGAATTTTGAG
EST: gi|19778055|gb|BQ039251.1|BQ039251
EST:     GCGCCACGACTGCTGCCGGCCGCCTTGTCGTCAATCACGGAGTCTTAAAG                         CTGATGGAAGCTCACAGTGGGCATTACCGGCCGAGC
genomic: GCGCCACGACTGCTGCCGGCCGCCTTGTCGTCAATCACGGAGTCTTAAAGgtaggaccgt ... ttggtaatagCTGATGGAAGCTCACAGTGGGCATTACCGGCCGAGC
EST: gi|162236369|gb|FC411488.1|FC411488
EST:     GCGCCACGACTGCTGCCGGCCGCCTTGTCGTCAATCACGGAGTCTTAAAG                         CTGATGGAAGCTCACAGTGGGCATTACCGGCCGAGCCCAGAGAATTTTGAG
genomic: GCGCCACGACTGCTGCCGGCCGCCTTGTCGTCAATCACGGAGTCTTAAAGgtaggaccgt ... ttggtaatagCTGATGGAAGCTCACAGTGGGCATTACCGGCCGAGCCCAGAGAATTTTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggattctgatatgtgacgaattgcatctaactgattttttttgccttggtaatagCTGATGGAAGCTCACAGTGGGCATTACCGGCCGAGCCCAGAGAATTTTGAGGCGCTTGTTAGGAAATTGATTGCTAGTGGGGCTGATTTGTCCTTGGCTA
                                  ttttttttgcctt  CT-rich tract
                           taactgatttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cattgtaaagtttgaggagtttcgaatcttgatttaggagttggaggattctgatatgtgacgaattgcatctaactgattttttttgccttggtaatagCTGATGGAAGCTCACAGTGGGCATTACCGGCCGAGCCCAGAGAATTTTGAGGCGCTTGTTAGGAAATTGATTGCTAGTGGGGCTGATTTGTCCTTGGCTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT