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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTGGTGGACGCGCTGCAGAAGAAGTCATCTTCGGTGACGCTGAAGTAACAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAGgtaaattgattgcgttgaatgcaattgatatttttcaccttgtaacgacggttgtctcttgaataccctgcggttgaaaatttcttgtagcgtgacgatcgattctcataataattgacactgaatctgatgacctcgtgatgcag

Basic information

species Physcomitrella patens
transcript PP1S156_30V6.1
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|162154114|gb|FC330557.1|FC330557
EST:     CAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAG                         ATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
genomic: CAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAGgtaaattgat ... cgtgatgcagATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
EST: gi|162179365|gb|FC356314.1|FC356314
EST:     CAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAG                         ATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
genomic: CAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAGgtaaattgat ... cgtgatgcagATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
EST: gi|162179364|gb|FC356313.1|FC356313
EST:     CAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAG                         ATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
genomic: CAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAGgtaaattgat ... cgtgatgcagATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
EST: gi|162176883|gb|FC353365.1|FC353365
EST:     CAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAG                         ATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
genomic: CAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAGgtaaattgat ... cgtgatgcagATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
EST: gi|37852763|gb|BJ610771.1|BJ610771
EST:     CAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAG                         ATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
genomic: CAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAGgtaaattgat ... cgtgatgcagATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
EST: gi|162185948|gb|FC361048.1|FC361048
EST:     GGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAG                         ATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
genomic: GGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAGgtaaattgat ... cgtgatgcagATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
EST: gi|162188730|gb|FC364016.1|FC364016
EST:     CAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAG                         ATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
genomic: CAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAGgtaaattgat ... cgtgatgcagATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
EST: gi|162227881|gb|FC403689.1|FC403689
EST:     CAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAG                         ATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
genomic: CAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAGgtaaattgat ... cgtgatgcagATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
EST: gi|162227880|gb|FC403688.1|FC403688
EST:     CAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAG                         ATGGTCACAGTTTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
genomic: CAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAGgtaaattgat ... cgtgatgcagATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
EST: gi|162224137|gb|FC399201.1|FC399201
EST:     CAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAG                         ATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC
genomic: CAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAGgtaaattgat ... cgtgatgcagATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGAC

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: 35 (upstream exon), 23 (downstream exon)
Score: 25

TCTTGGTGGACGCGCTGCAGAAGAAGTCATCTTCGGTGACGCTGAAGTAACAACTGGCGCTTCCAGTGATTTGCAACAAGTGTCTTCCATGGCGAAGCAGgtaaattgat ... cgtgatgcagATGGTCACAGTCTACGGCATGTCCGACATCGGCCCGTGGGCACTTATGGACCCATCTGCCCAAGGTGGAGATATGATCATGCGCATGATGGCTCGCAACC




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