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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATCTCCCCCTGGAACATCGCTGGTGTATTCGCAGCTCTACAACTTCCCTGGGCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTGgtacgtggtaatccctcgggcgatgtccctggtatcgcgtttctaatggttcttcccgcaaccatctcgtgcagtgatccttgaactaggtcacgagtaccttaatgtctcaatggagtgtgggtggttcag

Basic information

species Physcomitrella patens
transcript PP1S101_103V6.1
intron # 2
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|18366608|gb|BJ198687.1|BJ198687
EST:     TGGGCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTG                         GTCTGCAACCCAACACGCGTTATTACTTCCAGTGCGGGGATGCTGCCACAG
genomic: TGGGCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTGgtacgtggta ... ggtggttcagGTCTGCAACCCAACACGCGTTATTACTTCCAGTGCGGGGATGCTGCCACAG
EST: gi|18350104|gb|BJ182155.1|BJ182155
EST:     TGGGCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTG                         GTCTGCAACCCAACACGCGTTATTACTTCCAGTGCGGGGATGCTGCCACAG
genomic: TGGGCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTGgtacgtggta ... ggtggttcagGTCTGCAACCCAACACGCGTTATTACTTCCAGTGCGGGGATGCTGCCACAG
EST: gi|18328917|gb|BJ160923.1|BJ160923
EST:     TGGGCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTG                         GTCTGCAACCCAACACGCGTTATTACTTCCAG
genomic: TGGGCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTGgtacgtggta ... ggtggttcagGTCTGCAACCCAACACGCGTTATTACTTCCAG
EST: gi|67718139|gb|BJ968398.1|BJ968398
EST:     TGGGCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTG                         GTCTGCAACCCAACACGCGTTATTACTTCCAGTGCGGGGATGCTGCCACAG
genomic: TGGGCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTGgtacgtggta ... ggtggttcagGTCTGCAACCCAACACGCGTTATTACTTCCAGTGCGGGGATGCTGCCACAG
EST: gi|100403621|gb|BY955018.1|BY955018
EST:     TGGGCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTG                         GTCTGCAACCCAACACGCGTTATTACTTCCAGTGCGGGGATGCTGCCACAG
genomic: TGGGCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTGgtacgtggta ... ggtggttcagGTCTGCAACCCAACACGCGTTATTACTTCCAGTGCGGGGATGCTGCCACAG
EST: gi|100387294|gb|BY970438.1|BY970438
EST:     TGGGCTTCGCAACTACACCTCNGGAATCATCCACCACGTCAGGCTTACTG                         GTCTGCAACCCAACACGCGTTATTACTTCCAGTGCGGGGATGCTGCCACAG
genomic: TGGGCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTGgtacgtggta ... ggtggttcagGTCTGCAACCCAACACGCGTTATTACTTCCAGTGCGGGGATGCTGCCACAG
EST: gi|100358921|gb|BY946755.1|BY946755
EST:     TGGGCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTG                         GTCTGCAACCCAACACGCGTTATTACTTCCAGTGCGGGGATGCTGCCACAG
genomic: TGGGCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTGgtacgtggta ... ggtggttcagGTCTGCAACCCAACACGCGTTATTACTTCCAGTGCGGGGATGCTGCCACAG
EST: gi|208348351|gb|DC905551.1|DC905551
EST:     TGGNCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTG                         GTCTGCAACCCAACACGCGTTATTACTTCCAGTGCGGGGATGCTGCCACAG
genomic: TGGGCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTGgtacgtggta ... ggtggttcagGTCTGCAACCCAACACGCGTTATTACTTCCAGTGCGGGGATGCTGCCACAG
EST: gi|100404807|gb|BY991293.1|BY991293
EST:     TGGGCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTG                         GTCTGCAACCCAACACGCGTTATTACTTCCAGTGCGGGGATGCTGCCACAG
genomic: TGGGCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTGgtacgtggta ... ggtggttcagGTCTGCAACCCAACACGCGTTATTACTTCCAGTGCGGGGATGCTGCCACAG

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), 13 (downstream exon)
Score: 1

GAATCTCCCCCTGGAACATCGCTGGTGTATTCGCAGCTCTACAACTTCCCTGGGCTTCGCAACTACACCTCGGGAATCATCCACCACGTCAGGCTTACTGgtacgtggta ... ggtggttcagGTCTGCAACCCAACACGCGTTATTACTTCCAGTGCGGGGATGCTGCCACAGACACTTTCAGTGCCGAGCACAGTTTCACGACACTTCCGCTACCAAGCCC




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