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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGGATCGACCATCCTGACACATGGATTTTCAAGAGTGGTGCTGAACTTGCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAGgtgccaacaacactatcgaagttgtgtgtgtgggtacatgcagtagatttacgagtcaagaactatacgcatatagcttaaaacgtcgtgatggagtttt...

Basic information

species Physcomitrella patens
transcript PP1S96_37V6.2
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|37847901|gb|BJ605909.1|BJ605909
EST:     TGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAG                         AAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
genomic: TGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAGgtgccaacaa ... gcctctacagAAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
EST: gi|208397989|gb|DC920721.1|DC920721
EST:     GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAG                         AAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
genomic: GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAGgtgccaacaa ... gcctctacagAAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
EST: gi|37852566|gb|BJ610574.1|BJ610574
EST:     GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAG                         AAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
genomic: GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAGgtgccaacaa ... gcctctacagAAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
EST: gi|100386432|gb|BY951228.1|BY951228
EST:     GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAG                         AAGGAAGGCCTGACAATACAGGTGCAAAAGGTGGCAATTGAGCTACTAGCA
genomic: GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAGgtgccaacaa ... gcctctacagAAGGAAGGCCTGACAATACAGGTGCAAA-GGTGGCAATTGAGCTACTAGCA
EST: gi|208394905|gb|DC920192.1|DC920192
EST:     GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAG                         AAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
genomic: GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAGgtgccaacaa ... gcctctacagAAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
EST: gi|208373028|gb|DC948793.1|DC948793
EST:     GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAG                         AAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
genomic: GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAGgtgccaacaa ... gcctctacagAAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
EST: gi|208360788|gb|DC946484.1|DC946484
EST:     GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAG                         AAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
genomic: GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAGgtgccaacaa ... gcctctacagAAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
EST: gi|208370080|gb|DC948147.1|DC948147
EST:     GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAG                         AAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
genomic: GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAGgtgccaacaa ... gcctctacagAAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
EST: gi|18332816|gb|BJ164829.1|BJ164829
EST:     GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAG                         AAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
genomic: GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAGgtgccaacaa ... gcctctacagAAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
EST: gi|208353378|gb|DC918476.1|DC918476
EST:     GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAG                         AAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
genomic: GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAGgtgccaacaa ... gcctctacagAAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
EST: gi|162190304|gb|FC366462.1|FC366462
EST:     GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAG                         AAGGAAGGCCCGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
genomic: GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAGgtgccaacaa ... gcctctacagAAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
EST: gi|67698107|gb|BJ958340.1|BJ958340
EST:     GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAG                         AAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
genomic: GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAGgtgccaacaa ... gcctctacagAAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
EST: gi|37822729|gb|BJ580795.1|BJ580795
EST:     GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAG                         AAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
genomic: GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAGgtgccaacaa ... gcctctacagAAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
EST: gi|208394901|gb|DC920188.1|DC920188
EST:     GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAG                         AAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG
genomic: GCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAGgtgccaacaa ... gcctctacagAAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAG

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: 30 (upstream exon), 33 (downstream exon)
Score: 7

AATGGATCGACCATCCTGACACATGGATTTTCAAGAGTGGTGCTGAACTTGCTGAAACTGGCGGCATCAAATGGGAAACATTTCAACGTCATTTGCACAGgtgccaacaa ... gcctctacagAAGGAAGGCCTGACAATACAGGTGCAAAGGTGGCAATTGAGCTACTAGCAGCTGGCATTCCGGTTACTTTAATCCTGGATTCTGGTGTAGGCTATATGAT




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