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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatggagcattgtaggatttgatgttttgtgtgggtgcgcttcgaatggaggtcgtggttgtggcggcgaagcatcttgtgtggatggatccgttgaacatggggctttggttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCGATTCCGAACACCGGGGACTCCGATTCAGTTCAGATTATTCTACCGCAAA

Basic information

species Physcomitrella patens
transcript PP1S167_1V6.1
intron # 9
splice site 3'
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|37836027|gb|BJ594035.1|BJ594035
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|67727151|gb|BJ977410.1|BJ977410
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|162182042|gb|FC356913.1|FC356913
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|162260908|gb|FC437965.1|FC437965
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|67695406|gb|BJ955639.1|BJ955639
EST:     CGGCGAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|18338354|gb|BJ170378.1|BJ170378
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|162183902|gb|FC360208.1|FC360208
EST:     CGGCGAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|162182856|gb|FC359772.1|FC359772
EST:     CGGCGAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|67695866|gb|BJ956099.1|BJ956099
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|162182855|gb|FC359771.1|FC359771
EST:     CGGCGAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|162180550|gb|FC356192.1|FC356192
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|162167540|gb|FC343711.1|FC343711
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|208365337|gb|DC950780.1|DC950780
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|67572493|gb|BJ945317.1|BJ945317
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|37844266|gb|BJ602274.1|BJ602274
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGNTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|162198833|gb|FC374316.1|FC374316
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|162249711|gb|FC426825.1|FC426825
EST:     CGGCAAAGGCTAATAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|162180551|gb|FC356193.1|FC356193
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|67726787|gb|BJ977046.1|BJ977046
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|208399434|gb|DC924864.1|DC924864
EST:     CGGCAAAGCCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|162182043|gb|FC356914.1|FC356914
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|162194880|gb|FC368997.1|FC368997
EST:     CGGCGAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|37852478|gb|BJ610486.1|BJ610486
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|208364369|gb|DC950670.1|DC950670
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|162239318|gb|FC415404.1|FC415404
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|162179697|gb|FC355755.1|FC355755
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|162202239|gb|FC378095.1|FC378095
EST:     CGGCGAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|67700068|gb|BJ960301.1|BJ960301
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|208370153|gb|DC951752.1|DC951752
EST:     CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
EST: gi|162183901|gb|FC360207.1|FC360207
EST:     CGGCGAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAG                         GTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG
genomic: CGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCG

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), 35 (downstream exon)
Score: 34

CGAATTTGATGAGATGGGTCAAGTGATGGGAGTTACATCTGAGGGTGAGACGGCAAAGGCTAAGAAAGTCGTGTGCGACCCGTCATACCTGCCGAATAAGgtaatggagc ... ttggtttcagGTGAAGAAGGTCGGGAAGGTGGTGCGTGCTATCTGCTTTATGAGCCATCCGATTCCGAACACCGGGGACTCCGATTCAGTTCAGATTATTCTACCGCAAA




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