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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aataaagggcttaggttcgtgtcaataatgggagtattcctccatctttggctagaattcacaccaactaagaagcggtgcgttttgtatgtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG

Basic information

species Physcomitrella patens
transcript PP1S9_317V6.2
intron # 18
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|37827954|gb|BJ585966.1|BJ585966
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|37839102|gb|BJ597110.1|BJ597110
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|37829800|gb|BJ587812.1|BJ587812
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|162242962|gb|FC416471.1|FC416471
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|208350253|gb|DC925729.1|DC925729
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|18340695|gb|BJ172725.1|BJ172725
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|37824608|gb|BJ582674.1|BJ582674
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|162160170|gb|FC337067.1|FC337067
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|15730020|gb|BI741619.1|BI741619
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|162178384|gb|FC355206.1|FC355206
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|37829477|gb|BJ587489.1|BJ587489
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|37829305|gb|BJ587317.1|BJ587317
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|37841967|gb|BJ599975.1|BJ599975
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|37841095|gb|BJ599103.1|BJ599103
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|162219674|gb|FC395878.1|FC395878
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|18337924|gb|BJ169948.1|BJ169948
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTNGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|15327252|gb|BI487832.1|BI487832
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|37827427|gb|BJ585439.1|BJ585439
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|162252661|gb|FC428698.1|FC428698
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|18334134|gb|BJ166150.1|BJ166150
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|162197253|gb|FC372540.1|FC372540
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|37825373|gb|BJ583439.1|BJ583439
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|18336149|gb|BJ168171.1|BJ168171
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|162197252|gb|FC372539.1|FC372539
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|37828150|gb|BJ586162.1|BJ586162
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|37851908|gb|BJ609916.1|BJ609916
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
EST: gi|162174854|gb|FC351646.1|FC351646
EST:     GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAA                         GCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
genomic: GCAAAAATGATGTGGTGGTAAATACTGGTGAAAGTGAACGCATGTTCGAAgtgagttttc ... gtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttggctagaattcacaccaactaagaagcggtgcgttttgtatgtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG
                                     ttttgtat  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aataaagggcttaggttcgtgtcaataatgggagtattcctccatctttggctagaattcacaccaactaagaagcggtgcgttttgtatgtggcaccagGCTTTGAAAGCAAAGGGCAAGGCCGTGCAATACGTTGTCTATGACGACGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG