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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGGCTAAAGCTGCTGGAAGCAGTGGGACAATGGAAATTGTACAAGAGCAACGTCCCACTTTGAAATTTGGCTTTGGCTCTAAACCAATTGCTTCCAAGgtgattatttttagtatttgtgattctgtatattgaccgtctttttgacatcttagtgggtgttgaatcgtctttttgtcttaaagcgttcagagtgata...

Basic information

species Physcomitrella patens
transcript PP1S9_212V6.1
intron # 7
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|37847696|gb|BJ605704.1|BJ605704
EST:     AACGTCCCACTTTGAAATTTGGCTTTGGCTCTAAACCAATTGCTTCCAAG                         ATGTCGATGGGGCTTGCTATAAAAAAGACCAAAGTGGCCTCCAAAGTCGCA
genomic: AACGTCCCACTTTGAAATTTGGCTTTGGCTCTAAACCAATTGCTTCCAAGgtgattattt ... ggcattgcagATGTCGATGGGGCTTGCTATAAAAAAGACCAAAGTGGCCTCCAAAGTCGCA
EST: gi|37838432|gb|BJ596440.1|BJ596440
EST:     AACGTCCCACTTTGAAATTTGGCTTTGGCTCTAAACCAATTGCTTCCAAG                         ATGTCGATGGGGCTTGCTATAAAAAAGACCAAAGTGGCCTCCAAAGTCGCA
genomic: AACGTCCCACTTTGAAATTTGGCTTTGGCTCTAAACCAATTGCTTCCAAGgtgattattt ... ggcattgcagATGTCGATGGGGCTTGCTATAAAAAAGACCAAAGTGGCCTCCAAAGTCGCA
EST: gi|162267094|gb|FC443325.1|FC443325
EST:     AACGTCCCACTTTGAAATTTGGCTTTGGCTCTAAACCAATTGCTTCCAAG                         ATGTCGATGGGGCTTGCTATAAAAAAGACCAAAGTGGCCTCCAAAGTCGCA
genomic: AACGTCCCACTTTGAAATTTGGCTTTGGCTCTAAACCAATTGCTTCCAAGgtgattattt ... ggcattgcagATGTCGATGGGGCTTGCTATAAAAAAGACCAAAGTGGCCTCCAAAGTCGCA
EST: gi|67697114|gb|BJ957347.1|BJ957347
EST:     AACGTCCCACTTTGAAATTTGGCTTTGGCTCTAAACCAATTGCTTCCAAG                         ATGTCGATGGGGCTTGCTATAAAAAAGACCAAAGTGGCCTCCAAAGTCGCA
genomic: AACGTCCCACTTTGAAATTTGGCTTTGGCTCTAAACCAATTGCTTCCAAGgtgattattt ... ggcattgcagATGTCGATGGGGCTTGCTATAAAAAAGACCAAAGTGGCCTCCAAAGTCGCA
EST: gi|18339738|gb|BJ171765.1|BJ171765
EST:     AACGTCCCACTTTGAAATTTGGCTTTGGCTCTAAACCAATTGCTTCCAAG                         ATGTCGATGGGGCTTGCTATAAAAAAGACCAAAGTGGCCTCCAAAGTCGCA
genomic: AACGTCCCACTTTGAAATTTGGCTTTGGCTCTAAACCAATTGCTTCCAAGgtgattattt ... ggcattgcagATGTCGATGGGGCTTGCTATAAAAAAGACCAAAGTGGCCTCCAAAGTCGCA
EST: gi|162235733|gb|FC411036.1|FC411036
EST:     AACGTCCCGCTTTGAAATTTGGCTTTGGCTCTAAACCAATTGCTTCCAAG                         ATGTCGATGGGGCTTGCTATAAAAAAGACCAAAGTGGCCTCCAAAGTCGCA
genomic: AACGTCCCACTTTGAAATTTGGCTTTGGCTCTAAACCAATTGCTTCCAAGgtgattattt ... ggcattgcagATGTCGATGGGGCTTGCTATAAAAAAGACCAAAGTGGCCTCCAAAGTCGCA
EST: gi|162235732|gb|FC411035.1|FC411035
EST:     AACGTCCCGCTTTGAAATTTGGCTTTGGCTCTAAACCAATTGCTTCCAAG                         ATGTCGATGGGGCTTGCTATAAAAAAGACCAAAGTGGCCTCCAAAGTCGCA
genomic: AACGTCCCACTTTGAAATTTGGCTTTGGCTCTAAACCAATTGCTTCCAAGgtgattattt ... ggcattgcagATGTCGATGGGGCTTGCTATAAAAAAGACCAAAGTGGCCTCCAAAGTCGCA
EST: gi|37846217|gb|BJ604225.1|BJ604225
EST:     AACGTCCCACTTTGAAATTTGGCTTTGGCTCTAAACCAATTGCTTCCAAG                         ATGTCGATGGGGCTTGCTATAAAAAAGACCAAAGTGGCCTCCAAAGTCGCA
genomic: AACGTCCCACTTTGAAATTTGGCTTTGGCTCTAAACCAATTGCTTCCAAGgtgattattt ... ggcattgcagATGTCGATGGGGCTTGCTATAAAAAAGACCAAAGTGGCCTCCAAAGTCGCA

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: 33 (upstream exon), 32 (downstream exon)
Score: 8

GGAGGCTAAAGCTGCTGGAAGCAGTGGGACAATGGAAATTGTACAAGAGCAACGTCCCACTTTGAAATTTGGCTTTGGCTCTAAACCAATTGCTTCCAAGgtgattattt ... ggcattgcagATGTCGATGGGGCTTGCTATAAAAAAGACCAAAGTGGCCTCCAAAGTCGCATCTGTGTTTAAGAATGATAGTGACGAAGAAACTTAGTTTAGCACCTTTG




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