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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCTCATCTCGCGTACTTCTCCTGCGCTACACATAAGCGACTACATTTGTGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactttgaactgcttttcttgacaggtttcttgtatgtttatgggatgggtgggagttgtgcataggagagtggcgggcgaagtgaagtgtgttg...

Basic information

species Physcomitrella patens
transcript PP1S56_20V6.1
intron # 1
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|67694332|gb|BJ954565.1|BJ954565
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|162230083|gb|FC406023.1|FC406023
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCA                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|162219767|gb|FC395971.1|FC395971
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCA                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|208356061|gb|DC918385.1|DC918385
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|208399083|gb|DC904492.1|DC904492
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|67575505|gb|BJ948329.1|BJ948329
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|162219768|gb|FC395972.1|FC395972
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCA                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|162203154|gb|FC379251.1|FC379251
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCA                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|208393688|gb|DC907839.1|DC907839
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|67569984|gb|BJ942808.1|BJ942808
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|67571026|gb|BJ943850.1|BJ943850
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|208383491|gb|DC923643.1|DC923643
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|7047303|gb|AW477197.1|AW477197
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|162203153|gb|FC379250.1|FC379250
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCA                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|208380682|gb|DC919412.1|DC919412
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|67573034|gb|BJ945858.1|BJ945858
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|208348315|gb|DC905529.1|DC905529
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|208383278|gb|DC928264.1|DC928264
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|208376692|gb|DC914515.1|DC914515
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|67698978|gb|BJ959211.1|BJ959211
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|19783553|gb|BQ040033.1|BQ040033
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|67575747|gb|BJ948571.1|BJ948571
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|208351732|gb|DC909784.1|DC909784
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|67695415|gb|BJ955648.1|BJ955648
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|208351311|gb|DC921728.1|DC921728
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|67699229|gb|BJ959462.1|BJ959462
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|67572049|gb|BJ944873.1|BJ944873
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|162230084|gb|FC406024.1|FC406024
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCA                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|208364981|gb|DC947123.1|DC947123
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
EST: gi|67507488|gb|BJ940370.1|BJ940370
EST:     TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCG                         ACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC
genomic: TGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGC

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), 35 (downstream exon)
Score: 39

TTGCTCATCTCGCGTACTTCTCCTGCGCTACACATAAGCGACTACATTTGTGAGGTTCTGCAAAAGACTCGATAACGAGAAGACCCCCTCTGCCGATTCGgtatgcactt ... tgccgtccagACCCTCATCAGCAATTAAAGCAATGGCTTCCAGGACATTCGTGAGCTCCGCGGTGACCATCCTCGCAGTCATGTCGAGTGTGGCAGCTGTTGCGAATGCC




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