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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacactaagctttttacttgtttaatttaaatttatctttactgtgaattatgccaaaaaggtttatatctggatttttagattaatcttacggtttcttgaatgcagGATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACATGATCATGCAATCA

Basic information

species Physcomitrella patens
transcript PP1S92_44V6.1
intron # 7
splice site 3'
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|162267209|gb|FC442621.1|FC442621
EST:     GCTATAGCAAACACGGTTTATGAAGCTATGCCAAATCCATCCGAGCATAA                         GATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACA
genomic: GCTATAGCAAACACGGTTTATGAAGCTATGCCAAATCCATCCGAGCATAAgtacactaag ... ttgaatgcagGATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACA
EST: gi|162267210|gb|FC442622.1|FC442622
EST:     GCTATAGCAAACACGGTTTATGAAGCTATGCCAAATCCATCCGAGCATAA                         GATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACA
genomic: GCTATAGCAAACACGGTTTATGAAGCTATGCCAAATCCATCCGAGCATAAgtacactaag ... ttgaatgcagGATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACA
EST: gi|208371902|gb|DC951866.1|DC951866
EST:     GCTATAGCAAACACGGTTTATGAAGCTATGCCAAATCCATCCGAGCATAA                         GATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACA
genomic: GCTATAGCAAACACGGTTTATGAAGCTATGCCAAATCCATCCGAGCATAAgtacactaag ... ttgaatgcagGATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACA
EST: gi|208397261|gb|DC920615.1|DC920615
EST:     GCTATAGCAAACACGGTTTATGAAGCTATGCCAAATCCATCCGAGCATAA                         GATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACA
genomic: GCTATAGCAAACACGGTTTATGAAGCTATGCCAAATCCATCCGAGCATAAgtacactaag ... ttgaatgcagGATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACA
EST: gi|162268964|gb|FC445456.1|FC445456
EST:     GCTATAGCAAACACGGTTTATGAAGCTATGCCAAATCCATCCGAGCATAA                         GATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACA
genomic: GCTATAGCAAACACGGTTTATGAAGCTATGCCAAATCCATCCGAGCATAAgtacactaag ... ttgaatgcagGATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACA
EST: gi|162271607|gb|FC447492.1|FC447492
EST:     GCTATAGCAAACACGGTTTATGAAGCTATGCCAAATCCATCCGAGCATAA                         GATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACA
genomic: GCTATAGCAAACACGGTTTATGAAGCTATGCCAAATCCATCCGAGCATAAgtacactaag ... ttgaatgcagGATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACA
EST: gi|162261907|gb|FC437311.1|FC437311
EST:     GCTATAGCAAACACGGTTTATGAAGCTATGCCAAATCCATCCGAGCATAA                         GATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACA
genomic: GCTATAGCAAACACGGTTTATGAAGCTATGCCAAATCCATCCGAGCATAAgtacactaag ... ttgaatgcagGATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACA
EST: gi|162261908|gb|FC437312.1|FC437312
EST:     GCTATAGCAAACACGGTTTATGAAGCTATGCCAAATCCATCCGAGCATAA                         GATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACA
genomic: GCTATAGCAAACACGGTTTATGAAGCTATGCCAAATCCATCCGAGCATAAgtacactaag ... ttgaatgcagGATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACA

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: 35 (upstream exon), 35 (downstream exon)
Score: 79

ATGAAAAGAGATGCTATAGCAAACACGGTTTATGAAGCTATGCCAAATCCATCCGAGCATAAgtacactaag ... ttgaatgcagGATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACATGATCATGCAATCA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaaaaaggtttatatctggatttttagattaatcttacggtttcttgaatgcagGATTTCACAAGAACAAGGGATGCCACAGGTGCTGTAGGCTACTTGGAAACATGATCATGCAATCA
                                atcttac  putative branch site (score: 79)
                                         tttctt  putative PPT
                    atttttagattaatct  TA-rich tract