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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTCAAGAAGCTTAGTTGGTCGCGCATCCAGCCTTTCACTGCAAATGAGTCTGACTTTCAGAGCTGATGAATGCAACGAACTTCAGTCCATGGAGAATTGgtgaatattctgcctacctcttttgacgcttagaactacatgcatagatgtacttaacaagcgtgaaagtgttaaagtcgtaaagaatttcagagctgat...

Basic information

species Physcomitrella patens
transcript PP1S98_202V6.3
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|100451346|gb|CJ974719.1|CJ974719
EST:     CTGACTTTCAGAGCTGATGAATGCAACGAACTTCAGTCCATGGAGAATTG                         GTTAAATGCGGGAACAAGCTGGAGCGAGCATCATGGAATTGTGGACGTTGA
genomic: CTGACTTTCAGAGCTGATGAATGCAACGAACTTCAGTCCATGGAGAATTGgtgaatattc ... cacttcgcagGTTAAATGCGGGAACAAGCTGGAGCGAGCATCATGGAATTGTGGACGTTGA
EST: gi|18324921|gb|BJ156916.1|BJ156916
EST:     CTGACTTTCAGAGCTGATGAATGCAACGAACTTCAGTCCATGGAGAATTG                         GTTAAATGCGGGAACAAGCTGGAGCGAGCATCATGGAATTGTGGACGTTGA
genomic: CTGACTTTCAGAGCTGATGAATGCAACGAACTTCAGTCCATGGAGAATTGgtgaatattc ... cacttcgcagGTTAAATGCGGGAACAAGCTGGAGCGAGCATCATGGAATTGTGGACGTTGA
EST: gi|100451562|gb|CJ974829.1|CJ974829
EST:     CTGACTTTCAGAGCTGATGAATGCAACGAACTTCAGTCCATGGAGAATTG                         GTTAAATGCGGGAACAAGCTGGAGCGAGCATCATGGAATTGTGGACGTTGA
genomic: CTGACTTTCAGAGCTGATGAATGCAACGAACTTCAGTCCATGGAGAATTGgtgaatattc ... cacttcgcagGTTAAATGCGGGAACAAGCTGGAGCGAGCATCATGGAATTGTGGACGTTGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTCAAGAAGCTTAGTTGGTCGCGCATCCAGCCTTTCACTGCAAATGAGTCTGACTTTCAGAGCTGATGAATGCAACGAACTTCAGTCCATGGAGAATTGgtgaatattctgcctacctcttttgacgcttagaactacatgcatagatgtacttaacaagcgtgaaagtgttaaagtcgtaaagaatttcagagctgat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA