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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCTCTAGAAGAGAAGAGGGCCCGCCTTGGTATCGTGGAGTGTGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaaccctctatcgctgaccatgtgggacaactgtagtacatgatgatggcactagctgcttggcgtgtcctgttttggctacgtgcattctctgcacaggtgtatgttgcatctttttttgctcaggtggagtacgatgcattaaataattcttactcaagcatgtcccatgttttactggcag

Basic information

species Physcomitrella patens
transcript PP1S264_34V6.1
intron # 7
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|208386880|gb|DC956891.1|DC956891
EST:     TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|67726166|gb|BJ976425.1|BJ976425
EST:     TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|37836413|gb|BJ594421.1|BJ594421
EST:     TGTTAACCATGAACTGCTTCAGCCTTACCCTGTTCTTCACGAAAAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|67720297|gb|BJ970556.1|BJ970556
EST:     TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|18339223|gb|BJ171250.1|BJ171250
EST:     TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|37827952|gb|BJ585964.1|BJ585964
EST:     TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|67693669|gb|BJ953902.1|BJ953902
EST:     TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|162162327|gb|FC338304.1|FC338304
EST:     TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|162206837|gb|FC382699.1|FC382699
EST:     TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|162241037|gb|FC416668.1|FC416668
EST:     TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|162200495|gb|FC376156.1|FC376156
EST:     CATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: CATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|162255462|gb|FC431876.1|FC431876
EST:     TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|162180761|gb|FC357846.1|FC357846
EST:     TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|162236928|gb|FC412879.1|FC412879
EST:     TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAANAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|162236927|gb|FC412878.1|FC412878
EST:     TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|162180762|gb|FC357847.1|FC357847
EST:     TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|67697855|gb|BJ958088.1|BJ958088
EST:     TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|7047301|gb|AW477195.1|AW477195
EST:     TGTTAACCATGAACTGCTTCAGCCTTACCCTGTTCTTCACGACAAGCCCG                         GTGACTGTGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|37820987|gb|BJ579053.1|BJ579053
EST:     TCACGAAAAGCCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGA
genomic: TCACGAAAAG-CCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGA
EST: gi|18335638|gb|BJ167658.1|BJ167658
EST:     TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
EST: gi|162206838|gb|FC382700.1|FC382700
EST:     TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCG                         GTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT
genomic: TGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGAT

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: 32 (upstream exon), 27 (downstream exon)
Score: 7

AGCTCTAGAAGAGAAGAGGGCCCGCCTTGGTATCGTGGAGTGTGTTAACCATGAACTGCTTCAGCCCTACCCTGTTCTTCACGAAAAGCCCGgtatgtaacc ... ttactggcagGTGACTGCGTAGCCCACATTAAGTTCACTGTATTGCTCATGCCCAACGGATCCGATAAGATAACTGGTCTGCCACTTCAAGAATGTCAGTCGACCAAAGT




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