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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTCCAGAAGCGGCTTCTCACAAATCTGGTAGCCTACCAGTGGAAGAAAAGGACACTAGTGTTTCAGTTAGCTCCGAGGGCACGAATATGCCGGATAAAGgtggtgaatttagtgactctcctgatgagttgttgataaacgctgtaatcgctacctttcctggtttgtttttatgagtttgtctgaaatctcatccgag...

Basic information

species Physcomitrella patens
transcript PP1S62_216V6.1
intron # 2
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|100391448|gb|BY971662.1|BY971662
EST:     GGACACTAGTGTTTCAGTTAGCTCCGAGGGCACGAATATGCCGGATAAAG                         AAGCATTACATCAGGCTAAGTCCAAGCAAAGAGGTAACTTACATGCTGAAG
genomic: GGACACTAGTGTTTCAGTTAGCTCCGAGGGCACGAATATGCCGGATAAAGgtggtgaatt ... tttcttacagAAGCATTACATCAGGCTAAGTCCAAGCAAAGAGGTAACTTACATGCTGAAG
EST: gi|18367329|gb|BJ199412.1|BJ199412
EST:     GGACACTAGTGTTTCAGTTAGCTCCGAGGGCACGAATATGCCGGATAAAG                         AAGCATTACATCAGGCTAAGTCCAAGCAAAGAGGTAACTTACATGCTGAAG
genomic: GGACACTAGTGTTTCAGTTAGCTCCGAGGGCACGAATATGCCGGATAAAGgtggtgaatt ... tttcttacagAAGCATTACATCAGGCTAAGTCCAAGCAAAGAGGTAACTTACATGCTGAAG
EST: gi|208383738|gb|DC911462.1|DC911462
EST:     GGACACTAGTGTTTCAGTTAGCTCCGAGGGCACGAATATGCCGGATAAAG                         AAGCATTACATCAGGCTAAGTCCAAGCAAAGAGGTAACTTACATGCTGAAG
genomic: GGACACTAGTGTTTCAGTTAGCTCCGAGGGCACGAATATGCCGGATAAAGgtggtgaatt ... tttcttacagAAGCATTACATCAGGCTAAGTCCAAGCAAAGAGGTAACTTACATGCTGAAG
EST: gi|208344970|gb|DC909081.1|DC909081
EST:     GGACACTAGTGTTTCAGTTAGCTCCGAGGGCACGAATATGCCGGATAAAG                         AAGCATTACATCAGGCTAAGTCCAAGCAAAGAGGTAACTTACATGCTGAAG
genomic: GGACACTAGTGTTTCAGTTAGCTCCGAGGGCACGAATATGCCGGATAAAGgtggtgaatt ... tttcttacagAAGCATTACATCAGGCTAAGTCCAAGCAAAGAGGTAACTTACATGCTGAAG
EST: gi|18366670|gb|BJ198749.1|BJ198749
EST:     GGACACTAGTGTTTCAGTTAGCTCCGAGGGCACGAATATGCCGGATAAAG                         AAGCATTACATCAGGCTAAGTCCAAGCAAAGAGGTAACTTACATGCTGAAG
genomic: GGACACTAGTGTTTCAGTTAGCTCCGAGGGCACGAATATGCCGGATAAAGgtggtgaatt ... tttcttacagAAGCATTACATCAGGCTAAGTCCAAGCAAAGAGGTAACTTACATGCTGAAG
EST: gi|100426583|gb|BY977301.1|BY977301
EST:     GGACACTAGTGTTTCAGTTAGCTCCGAGGGCACGAATATGCCGGATAAAG                         AAGCATTACATCAGGCTAAGTCCAAGCAAAGAGGTAACTTACATGCTGAAG
genomic: GGACACTAGTGTTTCAGTTAGCTCCGAGGGCACGAATATGCCGGATAAAGgtggtgaatt ... tttcttacagAAGCATTACATCAGGCTAAGTCCAAGCAAAGAGGTAACTTACATGCTGAAG
EST: gi|100387222|gb|BY970366.1|BY970366
EST:     GGACACTAGTGTTTCAGTTAGCTCCGAGGGCACGAATATGCCGGATAAAG                         AAGCATTACATCAGGCTAAGTCCAAGCAAAGAGGTAACTTACATGCTGAAG
genomic: GGACACTAGTGTTTCAGTTAGCTCCGAGGGCACGAATATGCCGGATAAAGgtggtgaatt ... tttcttacagAAGCATTACATCAGGCTAAGTCCAAGCAAAGAGGTAACTTACATGCTGAAG

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: 20 (upstream exon), 31 (downstream exon)
Score: 2

ACTCCAGAAGCGGCTTCTCACAAATCTGGTAGCCTACCAGTGGAAGAAAAGGACACTAGTGTTTCAGTTAGCTCCGAGGGCACGAATATGCCGGATAAAGgtggtgaatt ... tttcttacagAAGCATTACATCAGGCTAAGTCCAAGCAAAGAGGTAACTTACATGCTGAAGGTGAAGGAGATGGATGGGATACCGCAAGTGAAGGAGACGAGGTAGTCGG




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