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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATTTGACACCTGAGCTATTGAATGAGAAGTGCCCCACATATGATAGTCTTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAGgtgatgccagattctatgaagttcgacgttgagatgttagccttaagattttgttcagtatgaggaccgcgtgcatcatttcactcatgatcggcacgttgcttcaaatgcag

Basic information

species Physcomitrella patens
transcript PP1S9_141V6.1
intron # 18
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|162196312|gb|FC373536.1|FC373536
EST:     GTCGAGAAAAAG                         AGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
genomic: GTCGAGAAAAAGgtgatgccag ... tcaaatgcagAGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
EST: gi|162180613|gb|FC356970.1|FC356970
EST:     TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAG                         AGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
genomic: TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAGgtgatgccag ... tcaaatgcagAGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
EST: gi|162261062|gb|FC436936.1|FC436936
EST:     TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAG                         AGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
genomic: TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAGgtgatgccag ... tcaaatgcagAGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
EST: gi|162163003|gb|FC338393.1|FC338393
EST:     TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAG                         AGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
genomic: TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAGgtgatgccag ... tcaaatgcagAGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
EST: gi|162172364|gb|FC348305.1|FC348305
EST:     TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAG                         AGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
genomic: TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAGgtgatgccag ... tcaaatgcagAGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
EST: gi|162159762|gb|FC336343.1|FC336343
EST:     TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAG                         AGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
genomic: TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAGgtgatgccag ... tcaaatgcagAGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
EST: gi|162159761|gb|FC336342.1|FC336342
EST:     TGGTGA-TATTCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAG                         AGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
genomic: TGGTGATTA-TCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAGgtgatgccag ... tcaaatgcagAGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
EST: gi|162184621|gb|FC360819.1|FC360819
EST:     TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAG                         AGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
genomic: TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAGgtgatgccag ... tcaaatgcagAGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
EST: gi|37828017|gb|BJ586029.1|BJ586029
EST:     TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAG                         AGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
genomic: TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAGgtgatgccag ... tcaaatgcagAGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
EST: gi|162151013|gb|FC327909.1|FC327909
EST:     CGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAG                         AGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
genomic: CGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAGgtgatgccag ... tcaaatgcagAGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
EST: gi|162175535|gb|FC350966.1|FC350966
EST:     TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAG                         AGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
genomic: TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAGgtgatgccag ... tcaaatgcagAGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
EST: gi|162180612|gb|FC356969.1|FC356969
EST:     TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAG                         AGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
genomic: TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAGgtgatgccag ... tcaaatgcagAGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
EST: gi|162261061|gb|FC436935.1|FC436935
EST:     TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAG                         AGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
genomic: TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAGgtgatgccag ... tcaaatgcagAGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
EST: gi|162262116|gb|FC436871.1|FC436871
EST:     TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAG                         AGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
genomic: TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAGgtgatgccag ... tcaaatgcagAGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
EST: gi|162175534|gb|FC350965.1|FC350965
EST:     TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAG                         AGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC
genomic: TTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAGgtgatgccag ... tcaaatgcagAGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATAC

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: 33 (upstream exon), 34 (downstream exon)
Score: 12

GGATTTGACACCTGAGCTATTGAATGAGAAGTGCCCCACATATGATAGTCTTGGTGATTATCTTCGCATGCGGGGCCGTGAGGCATATGTCGAGAAAAAGgtgatgccag ... tcaaatgcagAGAATTGTGACGGAGAAAGCTCCAGGGCTTATGGAAGAAGCTGAGCGATACTTCGTCCTCTCACAAACCGACAATCTTTGGAAAGAGCATTTACAAGCTT




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