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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAGgtattgacagagctcttatggatttttaacttaaagttatctgaatttcttttgcttgtcctctaaaagtctcttgtgtaaagtttgtgatgtatatctgtgcaatacctgagcttcactagcatatcacttcatatctgtgaactttgaaagtaatgatttgcaacgttggaacatgcag

Basic information

species Physcomitrella patens
transcript PP1S99_201V6.1
intron # 7
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|162151171|gb|FC327157.1|FC327157
EST:     GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAG                         TTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
genomic: GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAGgtattgacag ... gaacatgcagTTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
EST: gi|162221878|gb|FC398445.1|FC398445
EST:     GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAG                         TTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
genomic: GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAGgtattgacag ... gaacatgcagTTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
EST: gi|162167067|gb|FC342529.1|FC342529
EST:     GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAG                         TTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
genomic: GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAGgtattgacag ... gaacatgcagTTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
EST: gi|162226649|gb|FC402733.1|FC402733
EST:     GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAG                         TTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
genomic: GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAGgtattgacag ... gaacatgcagTTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
EST: gi|208386153|gb|DC949064.1|DC949064
EST:     GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAG                         TTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
genomic: GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAGgtattgacag ... gaacatgcagTTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
EST: gi|162190768|gb|FC367030.1|FC367030
EST:     GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAG                         TTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
genomic: GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAGgtattgacag ... gaacatgcagTTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
EST: gi|208361835|gb|DC950107.1|DC950107
EST:     GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAG                         TTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
genomic: GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAGgtattgacag ... gaacatgcagTTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
EST: gi|162229328|gb|FC405519.1|FC405519
EST:     GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAG                         TTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
genomic: GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAGgtattgacag ... gaacatgcagTTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
EST: gi|67695217|gb|BJ955450.1|BJ955450
EST:     GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAG                         TTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
genomic: GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAGgtattgacag ... gaacatgcagTTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
EST: gi|162190767|gb|FC367029.1|FC367029
EST:     GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAG                         TTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
genomic: GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAGgtattgacag ... gaacatgcagTTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
EST: gi|162226648|gb|FC402732.1|FC402732
EST:     GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAG                         TTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
genomic: GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAGgtattgacag ... gaacatgcagTTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
EST: gi|162202685|gb|FC379004.1|FC379004
EST:     GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAG                         TTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
genomic: GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAGgtattgacag ... gaacatgcagTTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
EST: gi|162202684|gb|FC379003.1|FC379003
EST:     GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAG                         TTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
genomic: GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAGgtattgacag ... gaacatgcagTTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
EST: gi|162229329|gb|FC405520.1|FC405520
EST:     GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAG                         TTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT
genomic: GATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAGgtattgacag ... gaacatgcagTTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCT

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: 95

ATTGATGTGGATGTGGCCACTCATGTTACTGTTACAAGGGAAGGTTCTCGAAGgtattgacag ... gaacatgcagTTTGTTATCAGTTGAGACGGCAGACAGGCCAGGATTGCTGCTGGAGATTCTGAAGGTTATCTGTGACATCAGCATTTACGTGGAGTCGGCTGAAATCGAT




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