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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTGCAATTTCGTCATAAATTGTACCAACTGCGAGAAGAGCGCAACATGCGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAGgtattgtacagggtttctggttgttgttactgagaaagtaatgttgttgcttgtcactttacattggaacgtgtctgaattctatcctgaccgtgtacttccgctattgttccggcag

Basic information

species Physcomitrella patens
transcript PP1S130_217V6.1
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|162247133|gb|FC421358.1|FC421358
EST:     CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAG                         GTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
genomic: CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAGgtattgtaca ... gttccggcagGTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
EST: gi|100359970|gb|BY965963.1|BY965963
EST:     CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAG                         GTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
genomic: CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAGgtattgtaca ... gttccggcagGTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
EST: gi|18341730|gb|BJ173765.1|BJ173765
EST:     CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAG                         GTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
genomic: CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAGgtattgtaca ... gttccggcagGTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
EST: gi|162206027|gb|FC382812.1|FC382812
EST:     CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAG                         GTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
genomic: CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAGgtattgtaca ... gttccggcagGTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
EST: gi|162220662|gb|FC396874.1|FC396874
EST:     CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAG                         GTTTGGACCTTACTTTTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
genomic: CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAGgtattgtaca ... gttccggcagGTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
EST: gi|67699719|gb|BJ959952.1|BJ959952
EST:     CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAG                         GTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
genomic: CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAGgtattgtaca ... gttccggcagGTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
EST: gi|162213862|gb|FC389853.1|FC389853
EST:     CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAG                         GTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
genomic: CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAGgtattgtaca ... gttccggcagGTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
EST: gi|162243636|gb|FC421809.1|FC421809
EST:     CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAG                         GTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
genomic: CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAGgtattgtaca ... gttccggcagGTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
EST: gi|37830057|gb|BJ588069.1|BJ588069
EST:     CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAG                         GTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
genomic: CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAGgtattgtaca ... gttccggcagGTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
EST: gi|37821367|gb|BJ579433.1|BJ579433
EST:     CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAG                         GTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
genomic: CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAGgtattgtaca ... gttccggcagGTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
EST: gi|162206028|gb|FC382813.1|FC382813
EST:     CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAG                         GTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
genomic: CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAGgtattgtaca ... gttccggcagGTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
EST: gi|162213861|gb|FC389852.1|FC389852
EST:     CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAG                         GTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
genomic: CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAGgtattgtaca ... gttccggcagGTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
EST: gi|162247132|gb|FC421357.1|FC421357
EST:     CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAG                         GTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
genomic: CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAGgtattgtaca ... gttccggcagGTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
EST: gi|18332387|gb|BJ164400.1|BJ164400
EST:     CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAG                         GTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
genomic: CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAGgtattgtaca ... gttccggcagGTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
EST: gi|18350731|gb|BJ182782.1|BJ182782
EST:     CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAG                         GTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
genomic: CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAGgtattgtaca ... gttccggcagGTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
EST: gi|162220663|gb|FC396875.1|FC396875
EST:     CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAG                         GTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG
genomic: CGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAGgtattgtaca ... gttccggcagGTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGG

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: 9 (upstream exon), 27 (downstream exon)
Score: 1

GTTTGCAATTTCGTCATAAATTGTACCAACTGCGAGAAGAGCGCAACATGCGCCCGGAAACTTTTGCCAGTCTTGTTTCGGCAATTCTTTACGAGAAAAGgtattgtaca ... gttccggcagGTTTGGACCTTACTTCTGCGAGCCTATTATAGCCGGACTTAACGATGACGGAACTCCTTTCATTTGCACCACGGATTTGATCGGTGCCAA




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