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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCAGATACTCTAGACCCCGCTTTGTTGCGACCTGGACGTCTTGATCGAAAGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAGgtacgagttacttcttcttgttcagctgattgcggttttgtactttttggaatctgggtctgagattgcttgctcagtggctttctatcaaatatcattgcttgacttgtttggttggtgggtttgatggagatttgaacag

Basic information

species Physcomitrella patens
transcript PP1S243_67V6.1
intron # 4
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|15327414|gb|BI488088.1|BI488088
EST:     AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAG                         GTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
genomic: AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAGgtacgagtta ... atttgaacagGTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
EST: gi|208371413|gb|DC955749.1|DC955749
EST:     AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAG                         GTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
genomic: AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAGgtacgagtta ... atttgaacagGTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
EST: gi|37836792|gb|BJ594800.1|BJ594800
EST:     AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAG                         GTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
genomic: AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAGgtacgagtta ... atttgaacagGTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
EST: gi|37832462|gb|BJ590474.1|BJ590474
EST:     AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAG                         GTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
genomic: AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAGgtacgagtta ... atttgaacagGTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
EST: gi|37845653|gb|BJ603661.1|BJ603661
EST:     AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAG                         GTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
genomic: AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAGgtacgagtta ... atttgaacagGTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
EST: gi|208376580|gb|DC952307.1|DC952307
EST:     AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAG                         GTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
genomic: AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAGgtacgagtta ... atttgaacagGTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
EST: gi|208367978|gb|DC951003.1|DC951003
EST:     AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAG                         GTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
genomic: AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAGgtacgagtta ... atttgaacagGTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
EST: gi|162164770|gb|FC340492.1|FC340492
EST:     AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAG                         GTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
genomic: AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAGgtacgagtta ... atttgaacagGTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
EST: gi|67724576|gb|BJ974835.1|BJ974835
EST:     AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAG                         GTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
genomic: AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAGgtacgagtta ... atttgaacagGTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
EST: gi|208398297|gb|DC916436.1|DC916436
EST:     AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAG                         GTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
genomic: AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAGgtacgagtta ... atttgaacagGTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
EST: gi|37851697|gb|BJ609705.1|BJ609705
EST:     AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAG                         GTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
genomic: AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAGgtacgagtta ... atttgaacagGTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
EST: gi|208387168|gb|DC945467.1|DC945467
EST:     AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAG                         GTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
genomic: AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAGgtacgagtta ... atttgaacagGTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
EST: gi|37832812|gb|BJ590824.1|BJ590824
EST:     AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAG                         GTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
genomic: AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAGgtacgagtta ... atttgaacagGTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT
EST: gi|162186124|gb|FC361328.1|FC361328
EST:     AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAG                         GTATGTACAGCAAAGATGATCTTAAGTGAGGAAGTTGATCTAGAAGATTAT
genomic: AGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAGgtacgagtta ... atttgaacagGTATGTACAGCAAAGATGAACTTAAGTGAGGAAGTTGATCTAGAAGATTAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCAGATACTCTAGACCCCGCTTTGTTGCGACCTGGACGTCTTGATCGAAAGATTGAATTTCCACTGCCTGACAGGAGACAAAAGCGTATGGTCTTCCAGgtacgagttacttcttcttgttcagctgattgcggttttgtactttttggaatctgggtctgagattgcttgctcagtggctttctatcaaatatcattgcttgacttgtttggttggtgggtttgatggagatttgaacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA