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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCTGCGCGTTTGTGCTAAATGCTCTTTAGGTTGTTCGCTTGGTTCGTTGGAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGGgtatagatcgaaactctcctcgttgcctcttgttgtttggattttatgcggtttgattcgcgatggttggttgaggatgtgccgtgagaggtgatcggtg...

Basic information

species Physcomitrella patens
transcript PP1S192_39V6.4
intron # 1
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|18368101|gb|BJ200186.1|BJ200186
EST:     GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGG                         GTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
genomic: GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGGgtatagatcg ... catgctgcagGTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
EST: gi|100373143|gb|BY949230.1|BY949230
EST:     GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGG                         GTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
genomic: GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGGgtatagatcg ... catgctgcagGTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
EST: gi|208346321|gb|DC905268.1|DC905268
EST:     GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGG                         GTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
genomic: GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGGgtatagatcg ... catgctgcagGTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
EST: gi|18342270|gb|BJ174305.1|BJ174305
EST:     GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGG                         GTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
genomic: GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGGgtatagatcg ... catgctgcagGTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
EST: gi|18373140|gb|BJ204742.1|BJ204742
EST:     GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGG                         GTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
genomic: GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGGgtatagatcg ... catgctgcagGTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
EST: gi|100428162|gb|BY959314.1|BY959314
EST:     GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGG                         GTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
genomic: GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGGgtatagatcg ... catgctgcagGTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
EST: gi|18370191|gb|BJ201793.1|BJ201793
EST:     GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGG                         GTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
genomic: GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGGgtatagatcg ... catgctgcagGTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
EST: gi|18369142|gb|BJ201227.1|BJ201227
EST:     GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGANCAGG                         GTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGA
genomic: GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGGgtatagatcg ... catgctgcagGTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGA
EST: gi|18364987|gb|BJ197061.1|BJ197061
EST:     GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGG                         GTTTGGGAATTTANACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
genomic: GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGGgtatagatcg ... catgctgcagGTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
EST: gi|18364733|gb|BJ196806.1|BJ196806
EST:     GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGG                         GTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
genomic: GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGGgtatagatcg ... catgctgcagGTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
EST: gi|18369451|gb|BJ201538.1|BJ201538
EST:     GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGG                         GTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA
genomic: GAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGGgtatagatcg ... catgctgcagGTTTGGGAATTTAGACGCCCGAAGAATAACTGTAAATACCGTCTGAGAGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCTGCGCGTTTGTGCTAAATGCTCTTTAGGTTGTTCGCTTGGTTCGTTGGAGTGGAGTTGCTGCTGCTTGCAGTTGATGAACTTTGTTGCGAGAGCAGGgtatagatcgaaactctcctcgttgcctcttgttgtttggattttatgcggtttgattcgcgatggttggttgaggatgtgccgtgagaggtgatcggtg

- - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG