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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttgagaagggtgcacttgaaagccctcgctggaaactcctaattcatatgcagtgttgacactaaagaatggtctctcaccgaattgtgactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCGTTGCTGGTGGACTGTAATGGCCACGTCCAGAGCACATCGACGAACGACA

Basic information

species Physcomitrella patens
transcript PP1S98_113V6.2
intron # 4
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|37847051|gb|BJ605059.1|BJ605059
EST:     GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCG                         GAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
genomic: GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagtttta ... gactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
EST: gi|37847630|gb|BJ605638.1|BJ605638
EST:     GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCG                         GAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
genomic: GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagtttta ... gactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
EST: gi|37834923|gb|BJ592935.1|BJ592935
EST:     GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCG                         GAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
genomic: GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagtttta ... gactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
EST: gi|37828279|gb|BJ586291.1|BJ586291
EST:     GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCG                         GAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
genomic: GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagtttta ... gactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
EST: gi|37849270|gb|BJ607278.1|BJ607278
EST:     GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCG                         GAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
genomic: GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagtttta ... gactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
EST: gi|37830465|gb|BJ588477.1|BJ588477
EST:     GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCGCG                         GAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
genomic: GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagtttta ... gactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
EST: gi|37836088|gb|BJ594096.1|BJ594096
EST:     GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCG                         GAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
genomic: GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagtttta ... gactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
EST: gi|37822777|gb|BJ580843.1|BJ580843
EST:     GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCG                         GAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
genomic: GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagtttta ... gactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
EST: gi|37847778|gb|BJ605786.1|BJ605786
EST:     GCACTGGTCCCGCATCCAACTTTCCNTCGAGCGCAAATTCCCCTACCCCG                         GAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
genomic: GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagtttta ... gactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
EST: gi|37839578|gb|BJ597586.1|BJ597586
EST:     GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCG                         GAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
genomic: GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagtttta ... gactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
EST: gi|37836995|gb|BJ595003.1|BJ595003
EST:     GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCG                         GAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
genomic: GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagtttta ... gactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
EST: gi|37847120|gb|BJ605128.1|BJ605128
EST:     GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCG                         GAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
genomic: GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagtttta ... gactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatatgcagtgttgacactaaagaatggtctctcaccgaattgtgactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCGTTGCTGGTGGACTGTAATGGCCACGTCCAGAGCACATCGACGAACGACA
                   taaagaat  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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgagaagggtgcacttgaaagccctcgctggaaactcctaattcatatgcagtgttgacactaaagaatggtctctcaccgaattgtgactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCGTTGCTGGTGGACTGTAATGGCCACGTCCAGAGCACATCGACGAACGACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA