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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGCAATCAGTAACGAAGGAACATTGGGCCTTCTTGGTCTCGAATCGTACCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttgcttccatctctgtgaactggttttattttatgctctatttctgcaacaatatgcatctgtttttttttggaagctttgcttactattattgagtcaaaagacgaagcttgttctgttcttccagttactgttcattgagttggatgttgtcag

Basic information

species Physcomitrella patens
transcript PP1S79_254V6.1
intron # 5
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|162158021|gb|FC334955.1|FC334955
EST:     CCAGCTGCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTG                         GCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
genomic: CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttg ... atgttgtcagGCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
EST: gi|100432416|gb|BY960464.1|BY960464
EST:     CAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAAACGAT-G                         GCGATGATGTGA
genomic: CAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAA-CGATTGgtagctcttg ... atgttgtcagGCGATGATGTGA
EST: gi|100439349|gb|BY980219.1|BY980219
EST:     CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTG                         GCGATGATGTGAATGTAGAGGTATTTGACAA
genomic: CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttg ... atgttgtcagGCGATGATGTGAATGTAGAGGTATT-GACAA
EST: gi|162269550|gb|FC445106.1|FC445106
EST:     CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTG                         GCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
genomic: CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttg ... atgttgtcagGCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
EST: gi|208381754|gb|DC928417.1|DC928417
EST:     TTCGTCCTTTGATTGCAGAAGACGCGCACNTCCGACAAACGATNG                         GCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGNTNATATAC
genomic: TTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttg ... atgttgtcagGCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
EST: gi|100361020|gb|BY946873.1|BY946873
EST:     CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTG                         GCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
genomic: CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttg ... atgttgtcagGCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
EST: gi|208400165|gb|DC904813.1|DC904813
EST:     CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTG                         GCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
genomic: CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttg ... atgttgtcagGCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
EST: gi|162238635|gb|FC418998.1|FC418998
EST:     CCAGCTGCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTG                         GCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
genomic: CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttg ... atgttgtcagGCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
EST: gi|100447492|gb|CJ971791.1|CJ971791
EST:     CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTG                         GCGATGATGTGAATGTANAGGTATTGACAAACTTGGATACTGCTAATATAC
genomic: CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttg ... atgttgtcagGCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
EST: gi|100398771|gb|BY990507.1|BY990507
EST:     CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTG                         GCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
genomic: CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttg ... atgttgtcagGCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
EST: gi|208395729|gb|DC911822.1|DC911822
EST:     CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTG                         GCGATGATGTGAATGTANAGGTATTGACAAACTNGGATACTGCTAATATAC
genomic: CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttg ... atgttgtcagGCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
EST: gi|208350210|gb|DC901594.1|DC901594
EST:     CCAGCTTCGTCCTTTGATTGCANAAGACGCGCACTTCCGACAAACGATTG                         GCGATGATGTGAATGTANAGGTATTGACAAACTTGGATACTGCTAATATAC
genomic: CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttg ... atgttgtcagGCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
EST: gi|100362688|gb|BY947478.1|BY947478
EST:     CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTG                         GCGATGATGTGAATGTAGAGGTATTTGACAA-CTTGGATACTGCTAATATA
genomic: CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttg ... atgttgtcagGCGATGATGTGAATGTAGAGGTATT-GACAAACTTGGATACTGCTAATATA
EST: gi|208378690|gb|DC914664.1|DC914664
EST:     CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTG                         GCGATGATGTGAATGTAAAGGTATNGACAAACTTGGATACTGCTAA
genomic: CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttg ... atgttgtcagGCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAA
EST: gi|208391691|gb|DC942281.1|DC942281
EST:     CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACNAACGATTG                         GCGATGATGTGAATGTAAANGTATTGACNAACT-GGATACTGC
genomic: CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttg ... atgttgtcagGCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGC
EST: gi|100450091|gb|CJ974089.1|CJ974089
EST:     CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTG                         GCGATGATGTGAATGTAGAGGTATTGACAANCTTGGATACTGCTAATATAC
genomic: CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttg ... atgttgtcagGCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
EST: gi|162192867|gb|FC369354.1|FC369354
EST:     CCAGCTGCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTG                         GCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
genomic: CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttg ... atgttgtcagGCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
EST: gi|162192772|gb|FC369623.1|FC369623
EST:     CCAGCTGCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTG                         GCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC
genomic: CCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttg ... atgttgtcagGCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATAC

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: 17 (upstream exon), 21 (downstream exon)
Score: 4

ATGCAATCAGTAACGAAGGAACATTGGGCCTTCTTGGTCTCGAATCGTACCAGCTTCGTCCTTTGATTGCAGAAGACGCGCACTTCCGACAAACGATTGgtagctcttg ... atgttgtcagGCGATGATGTGAATGTAGAGGTATTGACAAACTTGGATACTGCTAATATACACACTGAAGTATCCGAACAAGACTTG




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