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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTTTTATGTGTTGGGTTGCGTCTTTTTCTCACTTGAGTTGTTGTTGAGTATCTGGGTTATTAAGgtaatttatctctatacttcctacattttaagaaaagcccatgatctttccatgtgacgcttaattagtgtcatatctgacagtttgtgtgtacgatatt...

Basic information

species Physcomitrella patens
transcript PP1S50_114V6.3
intron # 13
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|208349681|gb|DC917859.1|DC917859
EST:     GTTGCGTCTTTTTCTCACTTGAGTTGTTGTTGAGTATCTGGGTTATTAAG                         GAAGTGTATGATTACTTCAGAGGCTCCGGTAAAGCAGCGCAACTTAAGCGA
genomic: GTTGCGTCTTTTTCTCACTTGAGTTGTTGTTGAGTATCTGGGTTATTAAGgtaatttatc ... tgtctcccagGAAGTGTATGATTACTTCAGAGGCTCCGGTAAAGCAGCGCAACTTAAGCGA
EST: gi|67701518|gb|BJ961751.1|BJ961751
EST:     GTTGCGTCTTTTTCTCACTTGAGTTGTTGTTGAGTATCTGGGTTATTAAG                         GAAGTGTATGATTACTTCAGAGGCTCCGGTAAAGCAGCGCAACTTAAGCGA
genomic: GTTGCGTCTTTTTCTCACTTGAGTTGTTGTTGAGTATCTGGGTTATTAAGgtaatttatc ... tgtctcccagGAAGTGTATGATTACTTCAGAGGCTCCGGTAAAGCAGCGCAACTTAAGCGA
EST: gi|208394706|gb|DC903962.1|DC903962
EST:     GTTGCGTCTTTTTCTCACTTGAGTTGTTGTTGAGTATCTGGGTTATTAAG                         GAAGTGTATGATTACTTCAGAGGCTCCGGTAAAGCAGCGCAACTTAAGCGA
genomic: GTTGCGTCTTTTTCTCACTTGAGTTGTTGTTGAGTATCTGGGTTATTAAGgtaatttatc ... tgtctcccagGAAGTGTATGATTACTTCAGAGGCTCCGGTAAAGCAGCGCAACTTAAGCGA
EST: gi|67695428|gb|BJ955661.1|BJ955661
EST:     GTTGCGTCTTTTTCTCACTTGAGTTGTTGTTGAGTATCTGGGTTATTAAG                         GAAGTGTATGATTACTTCAGAGGCTCCGGTAAAGCAGCGCAACTTAAGCGA
genomic: GTTGCGTCTTTTTCTCACTTGAGTTGTTGTTGAGTATCTGGGTTATTAAGgtaatttatc ... tgtctcccagGAAGTGTATGATTACTTCAGAGGCTCCGGTAAAGCAGCGCAACTTAAGCGA
EST: gi|208380999|gb|DC919881.1|DC919881
EST:     GTTGCGTCTTTTTCTCACTTGAGTTGTTGTTGAGTATCTGGGTTATTAAG                         GAAGTGTATGATTACTTCAGAGGCTCCGGTAAAGCAGCGCAACTTAAGCGA
genomic: GTTGCGTCTTTTTCTCACTTGAGTTGTTGTTGAGTATCTGGGTTATTAAGgtaatttatc ... tgtctcccagGAAGTGTATGATTACTTCAGAGGCTCCGGTAAAGCAGCGCAACTTAAGCGA
EST: gi|208375107|gb|DC944846.1|DC944846
EST:     GTTGCGTCTTTTTCTCACTTGAGTTGTTGTTGAGTATCTGGGTTATTAAG                         GAAGTGTATGATTACTTCAGAGGCTCCGGTAAAGCAGCGCAACTTAAGCGA
genomic: GTTGCGTCTTTTTCTCACTTGAGTTGTTGTTGAGTATCTGGGTTATTAAGgtaatttatc ... tgtctcccagGAAGTGTATGATTACTTCAGAGGCTCCGGTAAAGCAGCGCAACTTAAGCGA
EST: gi|162258284|gb|FC434683.1|FC434683
EST:     GTTGCGTCTTTTTCTCACTTGAGTTGTTGTTGAGTATCTGGGTTATTAAG                         GAAGTGTATGATTACTTCAGAGGCTCCGGTAAAGCAGCGCAACTTAAGCGA
genomic: GTTGCGTCTTTTTCTCACTTGAGTTGTTGTTGAGTATCTGGGTTATTAAGgtaatttatc ... tgtctcccagGAAGTGTATGATTACTTCAGAGGCTCCGGTAAAGCAGCGCAACTTAAGCGA
EST: gi|6167410|gb|AW145674.1|AW145674
EST:     GTGGCGTCTTTCTCTCACATGAGTTGTTGTTGAGTATCTGGGTTATTAAG                         GAAGTGTATGATTACTTCAGAGGCTCCGGTAAAGCAGCGCAACTTAAGCGA
genomic: GTTGCGTCTTTTTCTCACTTGAGTTGTTGTTGAGTATCTGGGTTATTAAGgtaatttatc ... tgtctcccagGAAGTGTATGATTACTTCAGAGGCTCCGGTAAAGCAGCGCAACTTAAGCGA

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: 13 (upstream exon), 29 (downstream exon)
Score: 2

ATTTTTTATGTGTTGGGTTGCGTCTTTTTCTCACTTGAGTTGTTGTTGAGTATCTGGGTTATTAAGgtaatttatc ... tgtctcccagGAAGTGTATGATTACTTCAGAGGCTCCGGTAAAGCAGCGCAACTTAAGCGAGAAGCTGCAGGTGGTGCTTTCAGAGCTGCTATATGATTTGACACATCTA




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