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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGACTAAGAGATGGACAAGGTCGACCTCCCGGTGTAATTGGCATGTGGCCTTCCCGTGCTGTCACTTTTATTGACAACCATGACACTGGATCCACTCAGgttttggagaagcttttccctttttgtttttgaccttcatactactcagaacagctcttatgaacaacgcagatactaacacttctgaatgttcaattag...

Basic information

species Physcomitrella patens
transcript PP1S7_147V6.1
intron # 13
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|18334039|gb|BJ166055.1|BJ166055
EST:     CATGACACTGGATCCACTCAG                         GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG
genomic: CATGACACTGGATCCACTCAGgttttggaga ... acacttgcagGGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG
EST: gi|67695856|gb|BJ956089.1|BJ956089
EST:     GTGCTGTCACTTTTATTGACAACCATGACACTGGATCCACTCAG                         GGATTTTGGCCGTTTCCATGGGANCACGTTGCACAG
genomic: GTGCTGTCACTTTTATTGACAACCATGACACTGGATCCACTCAGgttttggaga ... acacttgcagGGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG
EST: gi|37825955|gb|BJ584021.1|BJ584021
EST:     TTCCCGTGCTGTCACTTTTATTGACAACCATGACACTGGATCCACTCAG                         GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG
genomic: TTCCCGTGCTGTCACTTTTATTGACAACCATGACACTGGATCCACTCAGgttttggaga ... acacttgcagGGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG
EST: gi|37822374|gb|BJ580440.1|BJ580440
EST:     NTTCCCGTGCTGTCACTTTTATTGACANCCATGACACTGGATCCACTCAG                         GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG
genomic: CTTCCCGTGCTGTCACTTTTATTGACAACCATGACACTGGATCCACTCAGgttttggaga ... acacttgcagGGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG
EST: gi|37824706|gb|BJ582772.1|BJ582772
EST:     CCCGTGCTGTCACTTTTATTGACANCCATGACACTGGATCCACTCAG                         GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG
genomic: CCCGTGCTGTCACTTTTATTGACAACCATGACACTGGATCCACTCAGgttttggaga ... acacttgcagGGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG
EST: gi|37834555|gb|BJ592567.1|BJ592567
EST:     ACTGGATCCACTCAG                         GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG
genomic: ACTGGATCCACTCAGgttttggaga ... acacttgcagGGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG
EST: gi|18341353|gb|BJ173388.1|BJ173388
EST:     TTGACAACCATGACACTGGATCCACTCAG                         GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG
genomic: TTGACAACCATGACACTGGATCCACTCAGgttttggaga ... acacttgcagGGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG
EST: gi|37822493|gb|BJ580559.1|BJ580559
EST:     NTTCCCGTGCTGTCACTTTTATTGACAACCATGACACTGGATCCACTCAG                         GGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG
genomic: CTTCCCGTGCTGTCACTTTTATTGACAACCATGACACTGGATCCACTCAGgttttggaga ... acacttgcagGGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG

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: 29 (upstream exon), 33 (downstream exon)
Score: 18

GAGACTAAGAGATGGACAAGGTCGACCTCCCGGTGTAATTGGCATGTGGCCTTCCCGTGCTGTCACTTTTATTGACAACCATGACACTGGATCCACTCAGgttttggaga ... acacttgcagGGATTTTGGCCGTTTCCATGGGACCACGTTGCACAG




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