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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGAACCTGTCCGGTGGTCTGCGGTTGCTCTTATCACTGATGATCCGTACGCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaatccctatcatctctaactaattctgctctttgttttgttttttaaaaaaactaaaaattaagctagtaatccagaatttacttgtgctaccatgaagggagaaattgtaattgtgttgtgttctcggtctctgcag

Basic information

species Physcomitrella patens
transcript PP1S101_169V6.1
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|37845451|gb|BJ603459.1|BJ603459
EST:     GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAA                         GTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
genomic: GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
EST: gi|162194475|gb|FC371115.1|FC371115
EST:     GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAA                         GTCGTTCNTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
genomic: GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
EST: gi|37840690|gb|BJ598698.1|BJ598698
EST:     GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAA                         GTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
genomic: GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
EST: gi|37821522|gb|BJ579588.1|BJ579588
EST:     GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAA                         GTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
genomic: GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
EST: gi|37848000|gb|BJ606008.1|BJ606008
EST:     GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAA                         GTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
genomic: GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
EST: gi|208368471|gb|DC955124.1|DC955124
EST:     GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAA                         GTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
genomic: GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
EST: gi|37852983|gb|BJ610991.1|BJ610991
EST:     GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAA                         GTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
genomic: GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
EST: gi|37842052|gb|BJ600060.1|BJ600060
EST:     GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAA                         GTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
genomic: GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
EST: gi|37849754|gb|BJ607762.1|BJ607762
EST:     GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAA                         GTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT
genomic: GCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGAT

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: 34 (upstream exon), 33 (downstream exon)
Score: 7

TAGAACCTGTCCGGTGGTCTGCGGTTGCTCTTATCACTGATGATCCGTACGCGGAGGCGGAGTCTCATCTCCCTGGGCATCCCGCTAACAAGACATACAAgcaagactaa ... gtctctgcagGTCGTTCCTGATACGTCTAAATTTGGGGGATCCGCAGCAACTAATCCTGATAGAGTGCCACTTCGAGCTCATCTGTCAGCGTTTCCTTACTCTTCCTGGC




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