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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGTCGTAAGTATGTTCAAGCCAGGAAGTAAGCAACAACTAAATACAAGTCGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAGgttggtatgtttcgcaatgttgtcaagatcaactgccgtagctgttgaaatgcttattaatcgtagtattttcttcaagaactcgaaaatcttctggtag...

Basic information

species Physcomitrella patens
transcript PP1S205_14V6.6
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|18347921|gb|BJ179968.1|BJ179968
EST:     CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAG                         GTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
genomic: CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAGgttggtatgt ... atcgatgcagGTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
EST: gi|100447808|gb|CJ972107.1|CJ972107
EST:     CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAG                         GTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
genomic: CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAGgttggtatgt ... atcgatgcagGTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
EST: gi|18357770|gb|BJ189829.1|BJ189829
EST:     CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAG                         GTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
genomic: CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAGgttggtatgt ... atcgatgcagGTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
EST: gi|18327201|gb|BJ159203.1|BJ159203
EST:     CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAG                         GTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
genomic: CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAGgttggtatgt ... atcgatgcagGTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
EST: gi|18330072|gb|BJ162078.1|BJ162078
EST:     CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAG                         GTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
genomic: CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAGgttggtatgt ... atcgatgcagGTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
EST: gi|18342071|gb|BJ174106.1|BJ174106
EST:     CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAG                         GTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
genomic: CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAGgttggtatgt ... atcgatgcagGTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
EST: gi|18350541|gb|BJ182592.1|BJ182592
EST:     CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAG                         GTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
genomic: CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAGgttggtatgt ... atcgatgcagGTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
EST: gi|18362573|gb|BJ194644.1|BJ194644
EST:     CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAG                         GTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
genomic: CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAGgttggtatgt ... atcgatgcagGTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
EST: gi|18372571|gb|BJ204173.1|BJ204173
EST:     CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAG                         GTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
genomic: CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAGgttggtatgt ... atcgatgcagGTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
EST: gi|100375646|gb|BY948932.1|BY948932
EST:     CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAG                         GTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
genomic: CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAGgttggtatgt ... atcgatgcagGTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
EST: gi|18348870|gb|BJ180919.1|BJ180919
EST:     CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAG                         GTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT
genomic: CGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAGgttggtatgt ... atcgatgcagGTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCAT

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: 29 (upstream exon), 35 (downstream exon)
Score: 13

TCGTCGTAAGTATGTTCAAGCCAGGAAGTAAGCAACAACTAAATACAAGTCGCGGAGGCGGAACAGTCGTCATGTAGCAGGCACTCGACTGAACTTCCAGgttggtatgt ... atcgatgcagGTGATTGCCTGCAGGTACGTGATCATAAATGCAAGTGAAGTGCCTGCTCATACTGGGTTGTTGCCCAATCTTGCAGCAGTAAATGTATGGGATTGACGGG




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