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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACACGGCGAGCAGCGGCGACATCCAGGCTCAACAGCGATCCCCACCAGAACGTCAGGATCCCCCGCCTAACAAATTGCATTACCTCCGCCCATCCTACTGgtgagtctacctctcttacaaacccccgccgtgcagtgcattgcacatcgctttgcttgcattgtgttcgacaacggatgcctttcccaagtcaagtatt...

Basic information

species Physcomitrella patens
transcript PP1S41_202V6.1
intron # 1
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|67508128|gb|BJ940999.1|BJ940999
EST:     CGTCAGGATCCCCCGCCTAACAAATTGCATTACCTCCGCCCATCCTACTG                         GGACGAACGCTTCCAAGGTGAACAGCACTACGAATGGTTCAAGAACTACTC
genomic: CGTCAGGATCCCCCGCCTAACAAATTGCATTACCTCCGCCCATCCTACTGgtgagtctac ... tggatgtcagGGACGAACGCTTCCAAGGTGAACAGCACTACGAATGGTTCAAGAACTACTC
EST: gi|162180625|gb|FC356982.1|FC356982
EST:     CGTCAGGATCCCCCGCCTAACAAATTGCATTACCTCCGCCCATCCTACTG                         GGACGAACGCTTCCAAGGTGAACAGCACTACGAATGGTTCAAGAACTACTC
genomic: CGTCAGGATCCCCCGCCTAACAAATTGCATTACCTCCGCCCATCCTACTGgtgagtctac ... tggatgtcagGGACGAACGCTTCCAAGGTGAACAGCACTACGAATGGTTCAAGAACTACTC
EST: gi|67577757|gb|BJ949924.1|BJ949924
EST:     CGTCAGGATCCCCCGCCTAACAAATTGCATTACCTCCGCCCATCCTACTG                         GGACGAACGCTTCCAAGGTGAACAGCACTACGAATGGTTCAAGAACTACTC
genomic: CGTCAGGATCCCCCGCCTAACAAATTGCATTACCTCCGCCCATCCTACTGgtgagtctac ... tggatgtcagGGACGAACGCTTCCAAGGTGAACAGCACTACGAATGGTTCAAGAACTACTC
EST: gi|100436243|gb|BY979451.1|BY979451
EST:     CGTCAGGATCCCCCGCCTAACAAATTGCATTACCTCCGCCCATCCTACTG                         GGACGAACGCTTCCAAGGTGAACAGCACTACGAATGGTTCAAGAACTACTC
genomic: CGTCAGGATCCCCCGCCTAACAAATTGCATTACCTCCGCCCATCCTACTGgtgagtctac ... tggatgtcagGGACGAACGCTTCCAAGGTGAACAGCACTACGAATGGTTCAAGAACTACTC
EST: gi|18365754|gb|BJ197831.1|BJ197831
EST:     CGTCAGGATCCCCCGCCTAACAAATTGCATTACCTCCGCCCATCCTACTG                         GGACGAACGCTTCCAAGGTGAACAGCACTACGAATGGTTCAAGAACTACTC
genomic: CGTCAGGATCCCCCGCCTAACAAATTGCATTACCTCCGCCCATCCTACTGgtgagtctac ... tggatgtcagGGACGAACGCTTCCAAGGTGAACAGCACTACGAATGGTTCAAGAACTACTC
EST: gi|208352453|gb|DC910181.1|DC910181
EST:     CGTCAGGATCCCCCGCCTAACAAATTGCATTACCTCCGCCCATCCTACTG                         GGACGAACGCTTCCAAGGTGAACAGCACTACGAATGGTTCAAGAACTACTC
genomic: CGTCAGGATCCCCCGCCTAACAAATTGCATTACCTCCGCCCATCCTACTGgtgagtctac ... tggatgtcagGGACGAACGCTTCCAAGGTGAACAGCACTACGAATGGTTCAAGAACTACTC
EST: gi|208353897|gb|DC914065.1|DC914065
EST:     CGTCAGGATCCCCCGCCTAACAAATTGCATTACCTCCGCCCATCCTACTG                         GGACNAACGCTTCCAAGGTGAACAGCACTACGAATGGTTCAAGAACTACTC
genomic: CGTCAGGATCCCCCGCCTAACAAATTGCATTACCTCCGCCCATCCTACTGgtgagtctac ... tggatgtcagGGACGAACGCTTCCAAGGTGAACAGCACTACGAATGGTTCAAGAACTACTC

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), 31 (downstream exon)
Score: 3

ACACGGCGAGCAGCGGCGACATCCAGGCTCAACAGCGATCCCCACCAGAACGTCAGGATCCCCCGCCTAACAAATTGCATTACCTCCGCCCATCCTACTGgtgagtctac ... tggatgtcagGGACGAACGCTTCCAAGGTGAACAGCACTACGAATGGTTCAAGAACTACTCGCATTTTCGACATCTTGTGTTGAAGCACATCAAACCGACCGACAGG




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