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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCGAAACGATCAGTCACAAGCACAAGAAGTTATATCTACCCAAAGAGTTTGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAGgtatgttaagattttgtttcaagtgctcaatctgaatgttacgaaggtaccataattgtttccaaataagttgttcggatatcttggtttgttgcatgca...

Basic information

species Physcomitrella patens
transcript PP1S7_406V6.1
intron # 4
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|208400722|gb|DC904900.1|DC904900
EST:     TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAG                         ATCAG
genomic: TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAGgtatgttaag ... attattgcagATCAG
EST: gi|67570161|gb|BJ942985.1|BJ942985
EST:     TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAG                         ATCAG
genomic: TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAGgtatgttaag ... attattgcagATCAG
EST: gi|162171829|gb|FC348979.1|FC348979
EST:     TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAG                         ATCAG
genomic: TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAGgtatgttaag ... attattgcagATCAG
EST: gi|208377375|gb|DC906644.1|DC906644
EST:     TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAG                         ATCAG
genomic: TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAGgtatgttaag ... attattgcagATCAG
EST: gi|162195749|gb|FC371140.1|FC371140
EST:     TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAG                         ATCAG
genomic: TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAGgtatgttaag ... attattgcagATCAG
EST: gi|100425949|gb|BY977201.1|BY977201
EST:     TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAG                         ATCAG
genomic: TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAGgtatgttaag ... attattgcagATCAG
EST: gi|100371973|gb|BY967643.1|BY967643
EST:     TGATGCCCGTAAACAATGGAGTCATTGTCTAACAATTGGTGACATTCTAG                         ATCAG
genomic: TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAGgtatgttaag ... attattgcagATCAG
EST: gi|162162644|gb|FC338946.1|FC338946
EST:     TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAG                         ATCAG
genomic: TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAGgtatgttaag ... attattgcagATCAG
EST: gi|208397325|gb|DC908229.1|DC908229
EST:     TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAG                         ATCAG
genomic: TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAGgtatgttaag ... attattgcagATCAG
EST: gi|18373041|gb|BJ204643.1|BJ204643
EST:     TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAG                         ATCAG
genomic: TGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAGgtatgttaag ... attattgcagATCAG

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), 35 (downstream exon)
Score: 15

ATCGAAACGATCAGTCACAAGCACAAGAAGTTATATCTACCCAAAGAGTTTGATGCCCGTAAACAATGGAGTCATTGTCCAACAATTGGTGACATTCTAGgtatgttaag ... attattgcagATCAG




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