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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGATTGAGATTGATAGAAGTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGGgtgagaggatgaagttattcactatttattctgtacttattattagttttggtttttattccattaattatcgtgtattgatcgatatttcatttttcttttgatttttcag

Basic information

species Physcomitrella patens
transcript PP1S58_197V6.1
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|18342243|gb|BJ174278.1|BJ174278
EST:     GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGG                         GGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
genomic: GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGGgtgagaggat ... gatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
EST: gi|208380031|gb|DC914581.1|DC914581
EST:     GTGTACGACGTGCAACGCTTGCATATGCGCTACGCTACTTCGTCAATCGG                         GGGACCAAACATTACAGCCACGTTTGTANCANTTTATGCACTTTTTGGACC
genomic: GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGGgtgagaggat ... gatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
EST: gi|100407853|gb|BY955811.1|BY955811
EST:     GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGG                         GGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
genomic: GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGGgtgagaggat ... gatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
EST: gi|208355357|gb|DC929804.1|DC929804
EST:     GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGG                         GGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
genomic: GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGGgtgagaggat ... gatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
EST: gi|162155579|gb|FC331530.1|FC331530
EST:     GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGG                         GGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
genomic: GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGGgtgagaggat ... gatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
EST: gi|67718012|gb|BJ968271.1|BJ968271
EST:     GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGG                         GGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
genomic: GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGGgtgagaggat ... gatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
EST: gi|18357519|gb|BJ189578.1|BJ189578
EST:     GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGG                         GGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
genomic: GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGGgtgagaggat ... gatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
EST: gi|67578657|gb|BJ950824.1|BJ950824
EST:     GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGG                         GGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
genomic: GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGGgtgagaggat ... gatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
EST: gi|18371944|gb|BJ203546.1|BJ203546
EST:     GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGG                         GGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
genomic: GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGGgtgagaggat ... gatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
EST: gi|18344030|gb|BJ176069.1|BJ176069
EST:     GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGG                         GGGACCAAACATTACAGCCACGTTTTGTAGCAGTTTATGCACTTTTTGGAC
genomic: GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGGgtgagaggat ... gatttttcagGGGACCAAACATTACAGCCACGTTT-GTAGCAGTTTATGCACTTTTTGGAC
EST: gi|18348917|gb|BJ180966.1|BJ180966
EST:     GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGG                         GGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
genomic: GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGGgtgagaggat ... gatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
EST: gi|100409673|gb|BY956049.1|BY956049
EST:     GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGG                         GGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
genomic: GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGGgtgagaggat ... gatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
EST: gi|100435291|gb|BY979169.1|BY979169
EST:     GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGG                         GGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
genomic: GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGGgtgagaggat ... gatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
EST: gi|100411979|gb|BY956357.1|BY956357
EST:     GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGG                         GGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
genomic: GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGGgtgagaggat ... gatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC

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: 34 (upstream exon), 33 (downstream exon)
Score: 8

CGATTGAGATTGATAGAAGTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGGgtgagaggat ... gatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACCAACCTTTCCAGGTACATTCAACATGAAGCGGTGCGTTTACACATTATTT




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