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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGTGCACGGTGCGGCGTTGGGAGGCAAGGAGGTGGAGGCGACTCGGCAGAACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaattgcggatgtttttcccgagcacgtggttgtaatgtggctctgtggacgatgattgcagggggtgggctgttctagagtgtttaccgtaa...

Basic information

species Physcomitrella patens
transcript PP1S120_164V6.1
intron # 4
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|162185729|gb|FC361570.1|FC361570
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162189106|gb|FC365952.1|FC365952
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162200233|gb|FC376300.1|FC376300
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162255638|gb|FC431636.1|FC431636
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162153364|gb|FC329874.1|FC329874
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162168085|gb|FC343775.1|FC343775
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162182479|gb|FC357454.1|FC357454
EST:     TGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: TGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162243627|gb|FC420669.1|FC420669
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162198128|gb|FC373078.1|FC373078
EST:     GAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: GAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162197884|gb|FC373639.1|FC373639
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|100391926|gb|BY989615.1|BY989615
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162186939|gb|FC362617.1|FC362617
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162163662|gb|FC340274.1|FC340274
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162184353|gb|FC360542.1|FC360542
EST:     GCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: GCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162198911|gb|FC372938.1|FC372938
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162169019|gb|FC345701.1|FC345701
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162183861|gb|FC360167.1|FC360167
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162186980|gb|FC363386.1|FC363386
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162165477|gb|FC340588.1|FC340588
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162159982|gb|FC335644.1|FC335644
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162215925|gb|FC392342.1|FC392342
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162179501|gb|FC356541.1|FC356541
EST:     CTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: CTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162229251|gb|FC405338.1|FC405338
EST:     GGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: GGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162266561|gb|FC441960.1|FC441960
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162171066|gb|FC346965.1|FC346965
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162180472|gb|FC356114.1|FC356114
EST:     TGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: TGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162182891|gb|FC358962.1|FC358962
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162193561|gb|FC370464.1|FC370464
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162181635|gb|FC357937.1|FC357937
EST:     CGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: CGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162186374|gb|FC361682.1|FC361682
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162175478|gb|FC350935.1|FC350935
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|67703177|gb|BJ963410.1|BJ963410
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162152937|gb|FC329239.1|FC329239
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162220402|gb|FC396368.1|FC396368
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
EST: gi|162197432|gb|FC372810.1|FC372810
EST:     AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAG                         CCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA
genomic: AACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGA

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: 58

CTGTGCACGGTGCGGCGTTGGGAGGCAAGGAGGTGGAGGCGACTCGGCAGAACCTGGGGTGGCCATATGAGCCCTTCCACGTGCCCGATGAAGTCAAGAGgtgagtgtaa ... tttgtggcagCCACTGGAGCAAGCACACTGACCTGGGAACCAAGTACCAGAGCGAGTGGGAAGCTGCTGTGGAGGAGTACGCACAGAAGTACCCTGAAGAAGGTGCCGAG




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