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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTGCTTCAGCGCTGCTGCTGCAGATTGTTTCGCACCATTCTACATCATCATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCGgtaagacgttattcaacctcactccttgcgttatatatatatatatatatatatattttttacagcagtcttttttggagcgttttttcattttgatttc...

Basic information

species Physcomitrella patens
transcript PP1S46_244V6.1
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|162270790|gb|FC446819.1|FC446819
EST:     ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCG                         ACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
genomic: ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCGgtaagacgtt ... tcttgtgcagACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
EST: gi|37850996|gb|BJ609004.1|BJ609004
EST:     ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCG                         ACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
genomic: ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCGgtaagacgtt ... tcttgtgcagACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
EST: gi|7067255|gb|AW497110.1|AW497110
EST:     ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCG                         ACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
genomic: ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCGgtaagacgtt ... tcttgtgcagACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
EST: gi|19790253|gb|BQ041775.1|BQ041775
EST:     ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCG                         ACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
genomic: ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCGgtaagacgtt ... tcttgtgcagACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
EST: gi|18370173|gb|BJ201775.1|BJ201775
EST:     ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCG                         ACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
genomic: ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCGgtaagacgtt ... tcttgtgcagACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
EST: gi|18360431|gb|BJ192493.1|BJ192493
EST:     ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCG                         ACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
genomic: ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCGgtaagacgtt ... tcttgtgcagACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
EST: gi|162270791|gb|FC446820.1|FC446820
EST:     ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCG                         ACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
genomic: ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCGgtaagacgtt ... tcttgtgcagACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
EST: gi|67507561|gb|BJ940443.1|BJ940443
EST:     ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCG                         ACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
genomic: ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCGgtaagacgtt ... tcttgtgcagACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
EST: gi|18360389|gb|BJ192451.1|BJ192451
EST:     ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCG                         ACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
genomic: ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCGgtaagacgtt ... tcttgtgcagACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
EST: gi|18363001|gb|BJ195073.1|BJ195073
EST:     ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCG                         ACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
genomic: ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCGgtaagacgtt ... tcttgtgcagACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
EST: gi|67508119|gb|BJ940990.1|BJ940990
EST:     GGCACTCGTTTCCCTTTACTTGGCTTCTCGTCATGGNG                         ACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
genomic: GGCACTCG-TTCCCTTTACTTGGCTTCTCGTCATGGCGgtaagacgtt ... tcttgtgcagACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
EST: gi|67569504|gb|BJ942328.1|BJ942328
EST:     ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCG                         ACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
genomic: ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCGgtaagacgtt ... tcttgtgcagACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
EST: gi|67692772|gb|BJ953005.1|BJ953005
EST:     ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCG                         ACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
genomic: ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCGgtaagacgtt ... tcttgtgcagACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
EST: gi|37838403|gb|BJ596411.1|BJ596411
EST:     ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCG                         ACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG
genomic: ATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCGgtaagacgtt ... tcttgtgcagACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCG

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: 34 (upstream exon), 34 (downstream exon)
Score: 20

TTTGCTTCAGCGCTGCTGCTGCAGATTGTTTCGCACCATTCTACATCATCATCGTCGCAGAAGGGCACTCGTTCCCTTTACTTGGCTTCTCGTCATGGCGgtaagacgtt ... tcttgtgcagACCATCCCCGTGAATCCGAAACCCTTTTTGAACGACTTGACAGGGAAGCCGGTGATCGTGAAACTGAAGTGGGGGATGGAATACAAAG




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