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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGGTCAATGTGACTCTTAAAACTTTTAACACTTTCATCCTCAAATTTCCGAAGATTGACGCCTCATTTGAAGCCGTCAGAGAAGTTTTCAATAAAGCAGgtttggaaactgccacattacaaacacatcttttcaaatttactgcaattgcggtgatcattcactgtctacgagatttacacttgattagcacgtcctc...

Basic information

species Physcomitrella patens
transcript PP1S429_31V6.3
intron # 3
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|100429868|gb|BY978129.1|BY978129
EST:     GAAGATTGACGCCTCATTTGAAGCCGTCAGAGAAGTTTTCAATAAAGCAG                         ATAAGAATGGGGATGGTTCCTTGGACATGGAGGAGTTGAAGCAGTGTCTAC
genomic: GAAGATTGACGCCTCATTTGAAGCCGTCAGAGAAGTTTTCAATAAAGCAGgtttggaaac ... ttgtccccagATAAGAATGGGGATGGTTCCTTGGACATGGAGGAGTTGAAGCAGTGTCTAC
EST: gi|18363372|gb|BJ195444.1|BJ195444
EST:     GAAGATTGACGCCTCATTTGAAGCCGTCAGAGAAGTTTTCAATAAAGCAG                         ATAAGAATGGGGATGGTTCCTTGGACATGGAGGAGTTGAAGCAGTGTCTAC
genomic: GAAGATTGACGCCTCATTTGAAGCCGTCAGAGAAGTTTTCAATAAAGCAGgtttggaaac ... ttgtccccagATAAGAATGGGGATGGTTCCTTGGACATGGAGGAGTTGAAGCAGTGTCTAC
EST: gi|100417874|gb|BY993227.1|BY993227
EST:     GAAGATTGACGCCTCATTTGAAGCCGTCAGAGAAGTTTTCAATAAAGCAG                         ATAAGAATGGGGATGGTTCCTTGGACATGGAGGAGTTGAAGCAGTGTCTAC
genomic: GAAGATTGACGCCTCATTTGAAGCCGTCAGAGAAGTTTTCAATAAAGCAGgtttggaaac ... ttgtccccagATAAGAATGGGGATGGTTCCTTGGACATGGAGGAGTTGAAGCAGTGTCTAC
EST: gi|100384207|gb|BY969338.1|BY969338
EST:     GAAGATTGACGCCTCATTTGAAGCCGTCAGAGAAGTTTTCAATAAAGCAG                         ATAAGAATGGGGATGGTTCCTTGGACATGGAGGAGTTGAAGCAGTGTCTAC
genomic: GAAGATTGACGCCTCATTTGAAGCCGTCAGAGAAGTTTTCAATAAAGCAGgtttggaaac ... ttgtccccagATAAGAATGGGGATGGTTCCTTGGACATGGAGGAGTTGAAGCAGTGTCTAC
EST: gi|18365459|gb|BJ197535.1|BJ197535
EST:     GAAGATTGACGCCTCATTTGAAGCCGTCAGAGAAGTTTTCAATAAAGCAG                         ATAAGAATGGGGATGGTTCCTTGGACATGGAGGAGTTGAAGCAGTGTCTAC
genomic: GAAGATTGACGCCTCATTTGAAGCCGTCAGAGAAGTTTTCAATAAAGCAGgtttggaaac ... ttgtccccagATAAGAATGGGGATGGTTCCTTGGACATGGAGGAGTTGAAGCAGTGTCTAC
EST: gi|67577673|gb|BJ949840.1|BJ949840
EST:     GAAGATTGACGCCTCATTTGAAGCCGTCAGAGAAGTTTTCAATAAAGCAG                         ATAAGAATGGGGATGGTTCCTTGGACATGGAGGAGTTGAAGCAGTGTCTAC
genomic: GAAGATTGACGCCTCATTTGAAGCCGTCAGAGAAGTTTTCAATAAAGCAGgtttggaaac ... ttgtccccagATAAGAATGGGGATGGTTCCTTGGACATGGAGGAGTTGAAGCAGTGTCTAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGGTCAATGTGACTCTTAAAACTTTTAACACTTTCATCCTCAAATTTCCGAAGATTGACGCCTCATTTGAAGCCGTCAGAGAAGTTTTCAATAAAGCAGgtttggaaactgccacattacaaacacatcttttcaaatttactgcaattgcggtgatcattcactgtctacgagatttacacttgattagcacgtcctc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT