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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGACACTGGCGAAATTCTGGGTGTTCACATTCTTGGTCTCCATGCCGCTGACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGGgtgagtccatgaactcatttgattcacagttgctgctgaaccttttaattcccagctaggatccttgatttaccaatcaatattcgtcacgtcttgctatcgattgctgtgtattcctaaaacaactggttgttcttcttgaatag

Basic information

species Physcomitrella patens
transcript PP1S35_94V6.1
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|162239089|gb|FC416228.1|FC416228
EST:     ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGG                         GACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
genomic: ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGGgtgagtccat ... tcttgaatagGACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
EST: gi|67692532|gb|BJ952765.1|BJ952765
EST:     ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGG                         GACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
genomic: ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGGgtgagtccat ... tcttgaatagGACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
EST: gi|162195482|gb|FC370899.1|FC370899
EST:     ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGG                         GACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
genomic: ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGGgtgagtccat ... tcttgaatagGACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
EST: gi|162185502|gb|FC362571.1|FC362571
EST:     ACCTTATTCAGGAAGCCTCAAACGCTATTGCGATGGGCAACCCCTTCAGG                         GACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATTTGAAGTTTTGGAC
genomic: ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGGgtgagtccat ... tcttgaatagGACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
EST: gi|162167618|gb|FC343750.1|FC343750
EST:     ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGG                         GACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
genomic: ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGGgtgagtccat ... tcttgaatagGACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
EST: gi|7584064|gb|AW699962.1|AW699962
EST:     ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGG                         GACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
genomic: ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGGgtgagtccat ... tcttgaatagGACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
EST: gi|162170368|gb|FC346773.1|FC346773
EST:     ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGG                         GACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
genomic: ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGGgtgagtccat ... tcttgaatagGACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
EST: gi|67694918|gb|BJ955151.1|BJ955151
EST:     ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGG                         GACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
genomic: ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGGgtgagtccat ... tcttgaatagGACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
EST: gi|208380575|gb|DC919361.1|DC919361
EST:     ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGG                         GACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
genomic: ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGGgtgagtccat ... tcttgaatagGACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
EST: gi|162166908|gb|FC343293.1|FC343293
EST:     ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGG                         GACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
genomic: ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGGgtgagtccat ... tcttgaatagGACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
EST: gi|162239088|gb|FC416227.1|FC416227
EST:     ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGG                         GACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
genomic: ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGGgtgagtccat ... tcttgaatagGACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
EST: gi|15728076|gb|BI740607.1|BI740607
EST:     ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGG                         GACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC
genomic: ACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGGgtgagtccat ... tcttgaatagGACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGAC

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: 27 (upstream exon), 29 (downstream exon)
Score: 6

AGACACTGGCGAAATTCTGGGTGTTCACATTCTTGGTCTCCATGCCGCTGACCTTATTCACGAAGCCTCAAACGCTATTGCGATGGGCAACACCATCAGGgtgagtccat ... tcttgaatagGACATCAAGTTTGCTGTTCATGCCCATCCCACCTTATCTGAAGTTTTGGACGAGCTGTTCAAGGCAGCTAAG




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