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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATACTCTAGATTTGCTCCCACCTAGTCCAATGGTTCTTGATAACTGGAAGCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCGgtgagttcattagtctctgtatttgttggttaggtccaggctgtgcttttatctcccatttattagtctgtgcgtatgatattcttcgcgtccatcctcg...

Basic information

species Physcomitrella patens
transcript PP1S33_218V6.1
intron # 6
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|208396917|gb|DC920457.1|DC920457
EST:     GCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCG                         GATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
genomic: GCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCGgtgagttcat ... tatgtggcagGATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
EST: gi|37853516|gb|BJ611524.1|BJ611524
EST:     GGCTAAGGATTTTCATTTGGCAATTAGCG                         GATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
genomic: GGCTAAGGATTTTCATTTGGCAATTAGCGgtgagttcat ... tatgtggcagGATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
EST: gi|37827683|gb|BJ585695.1|BJ585695
EST:     GCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCG                         GATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
genomic: GCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCGgtgagttcat ... tatgtggcagGATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
EST: gi|37826393|gb|BJ584405.1|BJ584405
EST:     GCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCG                         GATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
genomic: GCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCGgtgagttcat ... tatgtggcagGATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
EST: gi|208361215|gb|DC957684.1|DC957684
EST:     GCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCG                         GATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
genomic: GCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCGgtgagttcat ... tatgtggcagGATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
EST: gi|208352629|gb|DC921924.1|DC921924
EST:     GCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCG                         GATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
genomic: GCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCGgtgagttcat ... tatgtggcagGATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
EST: gi|162158942|gb|FC333983.1|FC333983
EST:     GCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCG                         GATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
genomic: GCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCGgtgagttcat ... tatgtggcagGATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
EST: gi|208350807|gb|DC925938.1|DC925938
EST:     GCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCG                         GATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
genomic: GCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCGgtgagttcat ... tatgtggcagGATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
EST: gi|162242488|gb|FC419182.1|FC419182
EST:     GCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCG                         GATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
genomic: GCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCGgtgagttcat ... tatgtggcagGATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
EST: gi|37835709|gb|BJ593721.1|BJ593721
EST:     GCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCG                         GATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT
genomic: GCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCGgtgagttcat ... tatgtggcagGATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATT

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: 14 (upstream exon), 22 (downstream exon)
Score: 1

AATACTCTAGATTTGCTCCCACCTAGTCCAATGGTTCTTGATAACTGGAAGCGTTTATATTCTAACACCAAGGCTAAGGATTTTCATTTGGCAATTAGCGgtgagttcat ... tatgtggcagGATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATTACAAGTACAATGACGAGAACCAAGTAACCTTTGTGACTATGAATAAAGT




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