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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGGGGAAGCACAGCATTGGTGCCCTGTTCTGGTTGCTGGCTCGCATGGTTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATGgtgagtggaatgccaatgttttcgggtgaggcttgatggtatggttgggtgcattagggcttgaattttgtggtaagtgaaatggagtttaccatctgga...

Basic information

species Physcomitrella patens
transcript PP1S59_133V6.1
intron # 3
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|208379664|gb|DC903719.1|DC903719
EST:     TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATG                         GTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAG
genomic: TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATGgtgagtggaa ... tgcgttacagGTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAG
EST: gi|100439438|gb|BY961933.1|BY961933
EST:     TTGCAAATGCGAGGGACGATCAGCGCGGGCCA-GCCCATGG-ATGTGATG                         GTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCA
genomic: TTGCAAATGCGAGGAACGATCAGCGCGG-CCAAGCC-ATGGGATGTGATGgtgagtggaa ... tgcgttacagGTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCA
EST: gi|208377522|gb|DC922625.1|DC922625
EST:     TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATG                         GTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAG
genomic: TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATGgtgagtggaa ... tgcgttacagGTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAG
EST: gi|67716287|gb|BJ966547.1|BJ966547
EST:     TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATG                         GTGGACCTCTTCTTTTACAGAGAGCCCGATG
genomic: TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATGgtgagtggaa ... tgcgttacagGTGGACCTCTTCTTTTACAGAGAGCCCGATG
EST: gi|162160077|gb|FC335947.1|FC335947
EST:     TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATG                         GTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAG
genomic: TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATGgtgagtggaa ... tgcgttacagGTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAG
EST: gi|208347925|gb|DC917618.1|DC917618
EST:     NTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATG                         GTGGACTTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAN
genomic: TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATGgtgagtggaa ... tgcgttacagGTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAG
EST: gi|208399572|gb|DC908753.1|DC908753
EST:     TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATG                         GTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAG
genomic: TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATGgtgagtggaa ... tgcgttacagGTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAG
EST: gi|67693121|gb|BJ953354.1|BJ953354
EST:     TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATG                         GTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAG
genomic: TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATGgtgagtggaa ... tgcgttacagGTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAG
EST: gi|67724804|gb|BJ975063.1|BJ975063
EST:     TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATG                         GTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAG
genomic: TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATGgtgagtggaa ... tgcgttacagGTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAG
EST: gi|162248750|gb|FC422822.1|FC422822
EST:     TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATG                         GTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAG
genomic: TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATGgtgagtggaa ... tgcgttacagGTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAG
EST: gi|162248749|gb|FC422821.1|FC422821
EST:     TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATG                         GTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAG
genomic: TTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATGgtgagtggaa ... tgcgttacagGTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAG

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

CAAGGGGAAGCACAGCATTGGTGCCCTGTTCTGGTTGCTGGCTCGCATGGTTTTGCAAATGCGAGGAACGATCAGCGCGGCCAAGCCATGGGATGTGATGgtgagtggaa ... tgcgttacagGTGGACCTCTTCTTTTACAGAGAGCCCGATGAAGGCAAGGACCGCGATGAGGAGGAGGCAGGAGCCGCTGAGTTCGCTGCCGTGGAGTACCCAGCCCCGG




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