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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTCATTTTTAACAAGAATTTAGAGCGAGCATTACGCATACTGGACCAAGGAGGTGTGCAACATGTTGTTTCTCATCCCAGTCAGCGTTCCGTCTTTCAGgtttgtgctatcaggtcttttaggtttggttgactccaatgaattaagaggcttataaggtgaagaaacttctctttaaataggttccctgttgctttta...

Basic information

species Physcomitrella patens
transcript PP1S92_62V6.1
intron # 3
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|18336363|gb|BJ168385.1|BJ168385
EST:     AGGTGTGCAACATGTTGTTTCTCATCCCAGTCAGCGTTCCGTCTTTCAG                         GTGATCGCAGAATCCAAGAGCGGCTCCAACAGCTATTTGTGCTTCCCAGAC
genomic: AGGTGTGCAACATGTTGTTTCTCATCCCAGTCAGCGTTCCGTCTTTCAGgtttgtgcta ... ttttgtccagGTGATCGCAGAATCCAAGAGCGGCTCCAACAGCTATTTGTGCTTCCCAGAC
EST: gi|162249951|gb|FC427052.1|FC427052
EST:     GAGGTGTGCAACATGTTGTTTCTCATCCCAGTCAGCGTTCCGTC--T---                         -T--T--CAGAATCCAAGAGCGGCTCCAACAGCTATTTGTGCTTCCCAGAC
genomic: GAGGTGTGCAACATGTTGTTTCTCATCCCAGTCAGCGTTCCGTCTTTCAGgtttgtgcta ... ttttgtccagGTGATCGCAGAATCCAAGAGCGGCTCCAACAGCTATTTGTGCTTCCCAGAC
EST: gi|208397308|gb|DC920662.1|DC920662
EST:     GAGGTGTGCAACATGTTGTTTCTCATCCCAGTCAGCGTTCCGTC--T---                         -T--T--CAGAATCCAAGAGCGGCTCCAACAGCTATTTGTGCTTCCCAGAC
genomic: GAGGTGTGCAACATGTTGTTTCTCATCCCAGTCAGCGTTCCGTCTTTCAGgtttgtgcta ... ttttgtccagGTGATCGCAGAATCCAAGAGCGGCTCCAACAGCTATTTGTGCTTCCCAGAC
EST: gi|18328125|gb|BJ160129.1|BJ160129
EST:     GAGGTGTGCAACATGTTGTTTCTCATCCCAGTCAGCGTTCCGTCTTTCAG                         GTGATCGCAGAATCCAAGAGCGGCTCCAACAGCTATTTGTGCTTCCCAGAC
genomic: GAGGTGTGCAACATGTTGTTTCTCATCCCAGTCAGCGTTCCGTCTTTCAGgtttgtgcta ... ttttgtccagGTGATCGCAGAATCCAAGAGCGGCTCCAACAGCTATTTGTGCTTCCCAGAC
EST: gi|162249950|gb|FC427051.1|FC427051
EST:     GAGGTGTGCAACATGTTGTTTCTCATCCCAGTCAGCGTTCCGTC--T---                         -T--T--CAGAATCCAAGAGCGGCTCCAACAGCTATTTGTGCTTCCCAGAC
genomic: GAGGTGTGCAACATGTTGTTTCTCATCCCAGTCAGCGTTCCGTCTTTCAGgtttgtgcta ... ttttgtccagGTGATCGCAGAATCCAAGAGCGGCTCCAACAGCTATTTGTGCTTCCCAGAC

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), 18 (downstream exon)
Score: 1

TTTCATTTTTAACAAGAATTTAGAGCGAGCATTACGCATACTGGACCAAGGAGGTGTGCAACATGTTGTTTCTCATCCCAGTCAGCGTTCCGTCTTTCAGgtttgtgcta ... ttttgtccagGTGATCGCAGAATCCAAGAGCGGCTCCAACAGCTATTTGTGCTTCCCAGACCATTTCTGTTCCTGTCAATCTTTCTTCTTCGACGTGGTTTCCAGAAGCG




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