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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGCTAACGCAGTCAAGgtgtagtacgcccctcagttatcatctcagtttactgttatcattcatcttatagcttatttgcttccactacatttattttgcctctattgctttggtt...

Basic information

species Physcomitrella patens
transcript PP1S159_2V6.1
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|100389762|gb|BY952568.1|BY952568
EST:     TTCTTTTGGTGCTAACGCAGTCAAG                         AGATACGCCATGCAACAAATGTTGAAATCCATGACCGGGAGCGCTGGGGGC
genomic: TTCTTTTGGTGCTAACGCAGTCAAGgtgtagtacg ... tgtggtgcagAGATACGCCATGCAACAAATGTTGAAATCCATGACCGGGAGCGCTGGGGGC
EST: gi|67577820|gb|BJ949987.1|BJ949987
EST:     TTCTTTTGGTGCTAACGCAGTCAAG                         AGATACGCCATGCAACAAATGTTGAAATCCATGACCGGGAGCGCTGGGGGC
genomic: TTCTTTTGGTGCTAACGCAGTCAAGgtgtagtacg ... tgtggtgcagAGATACGCCATGCAACAAATGTTGAAATCCATGACCGGGAGCGCTGGGGGC
EST: gi|162255998|gb|FC431762.1|FC431762
EST:     TTCTTTTGGTGCTAACGCAGTCAAG                         AGATACGCCATGCAACAAATGTTGAAATCCATGACCGGGAGCGCTGGGGGC
genomic: TTCTTTTGGTGCTAACGCAGTCAAGgtgtagtacg ... tgtggtgcagAGATACGCCATGCAACAAATGTTGAAATCCATGACCGGGAGCGCTGGGGGC
EST: gi|100429656|gb|BY959672.1|BY959672
EST:     TTCTTTTGGTGCTAACGCAGTCAAG                         AGATACGCCATGCAACAAATGTTGAAATCCATGACCGGGAGCGCTGGGGGC
genomic: TTCTTTTGGTGCTAACGCAGTCAAGgtgtagtacg ... tgtggtgcagAGATACGCCATGCAACAAATGTTGAAATCCATGACCGGGAGCGCTGGGGGC
EST: gi|67719502|gb|BJ969761.1|BJ969761
EST:     TTCTTTTGGTGCTAACGCAGTCAAG                         AGATACGCCATGCAACAAATGTTGAAATCCATGACCGGGAGCGCTGGGGGC
genomic: TTCTTTTGGTGCTAACGCAGTCAAGgtgtagtacg ... tgtggtgcagAGATACGCCATGCAACAAATGTTGAAATCCATGACCGGGAGCGCTGGGGGC
EST: gi|208399592|gb|DC908773.1|DC908773
EST:     TTCTTTTGGTGCTAACGCANTCAAN                         AGATACGCCATGCAACAAATGTTGAAATCCATGACCGGGAGCGCTGGNGGC
genomic: TTCTTTTGGTGCTAACGCAGTCAAGgtgtagtacg ... tgtggtgcagAGATACGCCATGCAACAAATGTTGAAATCCATGACCGGGAGCGCTGGGGGC
EST: gi|208363831|gb|DC943288.1|DC943288
EST:     TTCTTTTGGTGCTAACGCAGTCAAG                         AGATACGCCATGCAACAAATGTTGAAATCCATGACCGGGAGCGCTGGGGGC
genomic: TTCTTTTGGTGCTAACGCAGTCAAGgtgtagtacg ... tgtggtgcagAGATACGCCATGCAACAAATGTTGAAATCCATGACCGGGAGCGCTGGGGGC
EST: gi|162164027|gb|FC339926.1|FC339926
EST:     TTCTTTTGGTGCTAACGCAGTCAAG                         AGATACGCCATGCAACAAATGTTGAAATCCATGACCGGGAGCGCTGGGGGC
genomic: TTCTTTTGGTGCTAACGCAGTCAAGgtgtagtacg ... tgtggtgcagAGATACGCCATGCAACAAATGTTGAAATCCATGACCGGGAGCGCTGGGGGC

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: 18 (upstream exon), 35 (downstream exon)
Score: 3

GGTGCTAACGCAGTCAAGgtgtagtacg ... tgtggtgcagAGATACGCCATGCAACAAATGTTGAAATCCATGACCGGGAGCGCTGGGGGCCCTGGTGCTAGTCCGTTCGGTTCTCCTGGTGCTAATCCTTTTGGAGCAC




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