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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATGGCTGGGCTGTTCACGAGTACGGTGACCTAACCAGAGGCGCTCTGAGCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagttttacctcctttcaacatcccgtctccatcaatcataacagcacaaattatcaaaactccattaaaatatcgagtcatcagatgagtgaatcaa...

Basic information

species Physcomitrella patens
transcript PP1S98_113V6.1
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|18349339|gb|BJ181388.1|BJ181388
EST:     GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCG                         GAACAGCAACAGCAGCAGCAGCACGAAACCCA
genomic: GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagtttta ... gactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCA
EST: gi|18343578|gb|BJ175616.1|BJ175616
EST:     GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCG                         GAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
genomic: GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagtttta ... gactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
EST: gi|37847051|gb|BJ605059.1|BJ605059
EST:     GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCG                         GAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
genomic: GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagtttta ... gactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCG
EST: gi|18366901|gb|BJ198981.1|BJ198981
EST:     GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCG                         GAACAGCAACAGCAGCAGCAGCACGAA
genomic: GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagtttta ... gactgtgcagGAACAGCAACAGCAGCAGCAGCACGAA
EST: gi|37847630|gb|BJ605638.1|BJ605638
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|18351125|gb|BJ183176.1|BJ183176
EST:     GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCGCG                         GAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGG
genomic: GCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagtttta ... gactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGG
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|37834923|gb|BJ592935.1|BJ592935
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

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 23 (upstream exon), 19 (downstream exon)
Score: 2

GCATGGCTGGGCTGTTCACGAGTACGGTGACCTAACCAGAGGCGCTCTGAGCACTGGTCCCGCATCCAACTTTCCCTCGAGCGCAAATTCCCCTACCCCGgtaagtttta ... gactgtgcagGAACAGCAACAGCAGCAGCAGCACGAAACCCATGAGGGCAACTTAGGATCGTTGCTGGTGGACTGTAATGGCCACGTCCAGAGCACATCGACGAACGACA




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