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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATGACATAACAGACTTGGAACGCCAGCTCTCGGAGCAGGTGAAGTCCGTAGAGCGATTGCAATCTTCAGTTGCTGAACTGTCTGCTAAGgtaattataactttgtatcttagctgcaaactctgaccagcagtttctggaatttggacatgtcttcatctgcaatttcactattttccactcagctcta...

Basic information

species Physcomitrella patens
transcript PP1S216_69V6.2
intron # 6
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|208377606|gb|DC922709.1|DC922709
EST:     TGAAGTCCGTAGAGCGATTGCAATCTTCAGTTGCTGAACTGTCTGCTAAG                         CAAAGTTATAATCCCAATGAAGACTACGTGGATGCTGAAATAGAATTGCGG
genomic: TGAAGTCCGTAGAGCGATTGCAATCTTCAGTTGCTGAACTGTCTGCTAAGgtaattataa ... ggttttgcagCAAAGTTATAATCCCAATGAAGACTACGTGGATGCTGAAATAGAATTGCGG
EST: gi|162265700|gb|FC443106.1|FC443106
EST:     TGAAGTCCGTAGAGCGATTGCAATCTTCAGTTGCTGAACTGTCTGCTAAG                         CAAAGTTATAATCCCAATGAAGACTACGTGGATGCTGAAATAGAATTGCGG
genomic: TGAAGTCCGTAGAGCGATTGCAATCTTCAGTTGCTGAACTGTCTGCTAAGgtaattataa ... ggttttgcagCAAAGTTATAATCCCAATGAAGACTACGTGGATGCTGAAATAGAATTGCGG
EST: gi|208364455|gb|DC958024.1|DC958024
EST:     TGAAGTCCGTAGAGCGATTGCAATCTTCAGTTGCTGAACTGTCTGCTAAG                         CAAAGTTATAATCCCAATGAAGACTACGTGGATGCTGAAATAGAATTGCGG
genomic: TGAAGTCCGTAGAGCGATTGCAATCTTCAGTTGCTGAACTGTCTGCTAAGgtaattataa ... ggttttgcagCAAAGTTATAATCCCAATGAAGACTACGTGGATGCTGAAATAGAATTGCGG
EST: gi|162265701|gb|FC443107.1|FC443107
EST:     TGAAGTCCGTAGAGCGATTGCAATCTTCAGTTGCTGAACTGTCTGCTAAG                         CAAAGTTATAATCCCAATGAAGACTACGTGGATGCTGAAATAGAATTGCGG
genomic: TGAAGTCCGTAGAGCGATTGCAATCTTCAGTTGCTGAACTGTCTGCTAAGgtaattataa ... ggttttgcagCAAAGTTATAATCCCAATGAAGACTACGTGGATGCTGAAATAGAATTGCGG
EST: gi|37838817|gb|BJ596825.1|BJ596825
EST:     TTGCTGAACTGTCTGCTAAG                         CAAAGTTATAATCCCAATGAAGACTACGTGGATGCTGAAATAGAATTGCGG
genomic: TTGCTGAACTGTCTGCTAAGgtaattataa ... ggttttgcagCAAAGTTATAATCCCAATGAAGACTACGTGGATGCTGAAATAGAATTGCGG
EST: gi|208369491|gb|DC955904.1|DC955904
EST:     TGAAGTCCGTAGAGCGATTGCAATCTTCAGTTGCTGAACTGTCTGCTAAG                         CAAAGTTATAATCCCAATGAAGACTACGTGGATGCTGAAATAGAATTGCGG
genomic: TGAAGTCCGTAGAGCGATTGCAATCTTCAGTTGCTGAACTGTCTGCTAAGgtaattataa ... ggttttgcagCAAAGTTATAATCCCAATGAAGACTACGTGGATGCTGAAATAGAATTGCGG

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: 21 (upstream exon), 32 (downstream exon)
Score: 2

GCATGACATAACAGACTTGGAACGCCAGCTCTCGGAGCAGGTGAAGTCCGTAGAGCGATTGCAATCTTCAGTTGCTGAACTGTCTGCTAAGgtaattataa ... ggttttgcagCAAAGTTATAATCCCAATGAAGACTACGTGGATGCTGAAATAGAATTGCGGGCACGGCTAGCGACGTTCCTAGATTCAGCAAAGTCCTTCAACATAATCT




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