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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCGAAGCCTCCCAACCGACAGACTTCGACCGATGTTTCTCATCATAAATGCCGCAATCTATTTGAGTCAGgtctgtgcctgtgctagacagagtcatttgatttaattgcagggggaatccatcctaccggagatcgagtgcttttaacgcgcagattgagtttggaccgtttggattgatgttgatctgttctatggtcatatcttccagagttatttatgatggattgcattggttgaattgtaaag

Basic information

species Physcomitrella patens
transcript PP1S295_28V6.1
intron # 5
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|100358043|gb|BY965443.1|BY965443
EST:     GACTTCGACCGATGTTTCTCATCATAAATGCGGCAATCTATTTGAGTCAG                         GGTTTCATCTTGGGGCTACTTGTG
genomic: GACTTCGACCGATGTTTCTCATCATAAATGCCGCAATCTATTTGAGTCAGgtctgtgcct ... aattgtaaagGTTTTCATCT-GGGGCTACTTGTG
EST: gi|208372289|gb|DC936447.1|DC936447
EST:     GACTTCGACCGATGTTTCTCATCATAAATGCCGCAATCTATTTGAGTCAG                         GTTTTCATCTGGGGCTACTTGTGGTATACTCCAAGCTCTCTTATGCTGACT
genomic: GACTTCGACCGATGTTTCTCATCATAAATGCCGCAATCTATTTGAGTCAGgtctgtgcct ... aattgtaaagGTTTTCATCTGGGGCTACTTGTGGTATACTCCAAGCTCTCTTATGCTGACT
EST: gi|100356111|gb|BY946202.1|BY946202
EST:     GACTTCGACCGATGTTTCTCATCATAAATGCCGCAATCTATTTGAGTCAG                         GTTTTCATCTGGGGCTACTTGTGGTATACTCCAAGCTCTCTTATACTGACT
genomic: GACTTCGACCGATGTTTCTCATCATAAATGCCGCAATCTATTTGAGTCAGgtctgtgcct ... aattgtaaagGTTTTCATCTGGGGCTACTTGTGGTATACTCCAAGCTCTCTTATGCTGACT
EST: gi|67508414|gb|BJ941281.1|BJ941281
EST:     GACTTCGACCGATGTTTCTCATCATAAATGCCGCAATCTATTTGAGTCAG                         GTTTTCATCTGGGGCTACTTGTGGTATACTCCAAGCTCTCTTATGCTGACT
genomic: GACTTCGACCGATGTTTCTCATCATAAATGCCGCAATCTATTTGAGTCAGgtctgtgcct ... aattgtaaagGTTTTCATCTGGGGCTACTTGTGGTATACTCCAAGCTCTCTTATGCTGACT
EST: gi|208355715|gb|DC910613.1|DC910613
EST:     GACTTCGACCNATGTTTCTCATCATAAATGCCGCAATCTATTTGAGTCAG                         GTTTTCATCTGGGGCTACTTGTGGTATACTCCAAGCTCTCTTATGCTGACT
genomic: GACTTCGACCGATGTTTCTCATCATAAATGCCGCAATCTATTTGAGTCAGgtctgtgcct ... aattgtaaagGTTTTCATCTGGGGCTACTTGTGGTATACTCCAAGCTCTCTTATGCTGACT
EST: gi|208374316|gb|DC940673.1|DC940673
EST:     GACTTCGACCGATGTTTCTCATCATAAATGCCGCAATCTATTTGAGTCAG                         GTTTTCATCTGGGGCTACTTGTGGTATACTCCAAGCTCTCTTATGCTGACT
genomic: GACTTCGACCGATGTTTCTCATCATAAATGCCGCAATCTATTTGAGTCAGgtctgtgcct ... aattgtaaagGTTTTCATCTGGGGCTACTTGTGGTATACTCCAAGCTCTCTTATGCTGACT

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), 25 (downstream exon)
Score: 5

GCTCGAAGCCTCCCAACCGACAGACTTCGACCGATGTTTCTCATCATAAATGCCGCAATCTATTTGAGTCAGgtctgtgcct ... aattgtaaagGTTTTCATCTGGGGCTACTTGTGGTATACTCCAAGCTCTCTTATGCTGACTGTGGCAAAGATTTTCTTTGCAG




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