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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACTAACGAAGAAGCTCTTTCACAATACCCCGGGTTTGGTCCTGTTGGTCTGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGGgtgagaatttgatcttatgtttttttgtaaacaaaatttaaactagatctgaaactatttaatatacgttccagagcaactgcagcgtatcgagtgtttttggtaattgcgactcttaatatcaacttttaccaacttacaaccatgttttgatgcag

Basic information

species Physcomitrella patens
transcript PP1S91_64V6.3
intron # 14
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|208385728|gb|DC952889.1|DC952889
EST:     TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGG                         GCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
genomic: TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGGgtgagaattt ... tttgatgcagGCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
EST: gi|37828196|gb|BJ586208.1|BJ586208
EST:     TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGG                         GCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
genomic: TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGGgtgagaattt ... tttgatgcagGCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
EST: gi|208373036|gb|DC948801.1|DC948801
EST:     TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGG                         GCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
genomic: TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGGgtgagaattt ... tttgatgcagGCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
EST: gi|162197940|gb|FC373669.1|FC373669
EST:     TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGG                         GCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
genomic: TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGGgtgagaattt ... tttgatgcagGCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
EST: gi|162197954|gb|FC373670.1|FC373670
EST:     TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGG                         GCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
genomic: TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGGgtgagaattt ... tttgatgcagGCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
EST: gi|37822942|gb|BJ581008.1|BJ581008
EST:     TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGG                         GCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
genomic: TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGGgtgagaattt ... tttgatgcagGCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
EST: gi|37830159|gb|BJ588171.1|BJ588171
EST:     TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGG                         GCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
genomic: TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGGgtgagaattt ... tttgatgcagGCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
EST: gi|162196323|gb|FC374366.1|FC374366
EST:     TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGG                         GCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
genomic: TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGGgtgagaattt ... tttgatgcagGCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
EST: gi|37837195|gb|BJ595203.1|BJ595203
EST:     TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGG                         GCAGAGAGGTTAGAGGAACCGNCCGAAGAGGAAGATTTATGGGATATTATT
genomic: TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGGgtgagaattt ... tttgatgcagGCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
EST: gi|37824436|gb|BJ582502.1|BJ582502
EST:     TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGG                         GCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
genomic: TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGGgtgagaattt ... tttgatgcagGCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
EST: gi|37845572|gb|BJ603580.1|BJ603580
EST:     TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGG                         GCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
genomic: TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGGgtgagaattt ... tttgatgcagGCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
EST: gi|162196322|gb|FC374365.1|FC374365
EST:     TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGG                         GCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
genomic: TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGGgtgagaattt ... tttgatgcagGCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
EST: gi|37827243|gb|BJ585255.1|BJ585255
EST:     TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGG                         GCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT
genomic: TGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGGgtgagaattt ... tttgatgcagGCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATT

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), 10 (downstream exon)
Score: 2

GACTAACGAAGAAGCTCTTTCACAATACCCCGGGTTTGGTCCTGTTGGTCTGCATACTGTTTTTAAATTGATATTGATGAATCTGGAACGATGCCAAAGGgtgagaattt ... tttgatgcagGCAGAGAGGTTAGAGGAACCGGCCGAAGAGGAAGATTTATGGGATATTATTGTTACAG




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