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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGGATGAATTACTTGCATGAACACAAACCTGATCCGATAATCCACCGTGCTCTTAAGCCCAGgttagctttatgtttctcagtgtaggtccggtgtttgtatctttatttgtgtatctgaatgttgactggtggaacaatgtgcatgaagtagcataagtgt...

Basic information

species Physcomitrella patens
transcript PP1S392_39V6.1
intron # 8
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|162202694|gb|FC379507.1|FC379507
EST:     ACAAACNTGATCCGATAATCCACCGTGCTCTTAAGCCCAG                         CAATTTGTTGAGGGACGGCAAGCATTTGAAAGTAGCCAATTTTAGGCTTAG
genomic: ACAAACCTGATCCGATAATCCACCGTGCTCTTAAGCCCAGgttagcttta ... agagcttcagCAACTTGTTGAGGGACGGCAAGCATTTGAAAGTAGCCAATTTTAGGCTTAG
EST: gi|162246353|gb|FC422411.1|FC422411
EST:     TTGCATGAACACAAACCTGATCCGATAATCCACCGTGCTCTTAAGCCCAG                         CAATTTGTTGAGGGACGGCAAGCATTTGAAAGTAGCCAATTTTAGGCTTAG
genomic: TTGCATGAACACAAACCTGATCCGATAATCCACCGTGCTCTTAAGCCCAGgttagcttta ... agagcttcagCAACTTGTTGAGGGACGGCAAGCATTTGAAAGTAGCCAATTTTAGGCTTAG
EST: gi|37845628|gb|BJ603636.1|BJ603636
EST:     TTGCATGANCACAAACCTGATCCGATAATCCACCGTGCTCTTAAGCCCAG                         CAACTTGTTGAGGGACGGCAAGCATTTGAAAGTAGCCAATTTTAGGCTTAG
genomic: TTGCATGAACACAAACCTGATCCGATAATCCACCGTGCTCTTAAGCCCAGgttagcttta ... agagcttcagCAACTTGTTGAGGGACGGCAAGCATTTGAAAGTAGCCAATTTTAGGCTTAG
EST: gi|19784538|gb|BQ040192.1|BQ040192
EST:     TTGCATGAACACAAACCTGATCCGATAATCCACCGTGCTCTTAAGCCCAG                         CAACTTGTTGAGGGACGGCAAGCATTTGAAAGTAGCCAATTTTAGGCTTAG
genomic: TTGCATGAACACAAACCTGATCCGATAATCCACCGTGCTCTTAAGCCCAGgttagcttta ... agagcttcagCAACTTGTTGAGGGACGGCAAGCATTTGAAAGTAGCCAATTTTAGGCTTAG
EST: gi|162172776|gb|FC348365.1|FC348365
EST:     TTGCATGAACACAAACCTGATCCGATAATCCACCGTGCTCTTAAGCCCAG                         CAATTTGTTGAGGGACGGCAAGCATTTGAAAGTAGCCAATTTTAGGCTTAG
genomic: TTGCATGAACACAAACCTGATCCGATAATCCACCGTGCTCTTAAGCCCAGgttagcttta ... agagcttcagCAACTTGTTGAGGGACGGCAAGCATTTGAAAGTAGCCAATTTTAGGCTTAG
EST: gi|37839839|gb|BJ597847.1|BJ597847
EST:     CCGATAATCCNCCGTGCTCTTAAGCCCAG                         CAACTTGTTGAGGGACGGCAAGCATTTGAAAGTAGCCAATTTTAGGCTTAG
genomic: CCGATAATCCACCGTGCTCTTAAGCCCAGgttagcttta ... agagcttcagCAACTTGTTGAGGGACGGCAAGCATTTGAAAGTAGCCAATTTTAGGCTTAG

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: 28 (upstream exon), 35 (downstream exon)
Score: 3

GGGGATGAATTACTTGCATGAACACAAACCTGATCCGATAATCCACCGTGCTCTTAAGCCCAGgttagcttta ... agagcttcagCAACTTGTTGAGGGACGGCAAGCATTTGAAAGTAGCCAATTTTAGGCTTAGCCTTCCGAAGTACGATTCTGCATCTGAAAATGGATCAGAAAATGTTGGC




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