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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGAATCTAAAGCAAAATCTGAAGACCATCACGCTTGAGGAAGGGAAGAAACGGGGGGTGATTTTGGCTATTCATGGGCATTTCCGCGACTGGCTTTTTGgtaatctcattgccggtttatcatcgttgtctttaatatctcacaatgtttttattgcaactaagctcctggtgctaattgtgttttgtgctatatatgcag

Basic information

species Physcomitrella patens
transcript PP1S79_20V6.1
intron # 9
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|162161485|gb|FC337652.1|FC337652
EST:     ACTGGCTTTTTG                         CCTCTGGTAATATCCGACAAATATATGAGCTTCAAGCACTGGATAGGTTGG
genomic: ACTGGCTTTTTGgtaatctcat ... atatatgcagCCTCTGGTAATATCCGACAAATATATGAGCTTCAAGCACTGGATAGGTTGG
EST: gi|37829206|gb|BJ587218.1|BJ587218
EST:     ACGGGGGGTGATTTTGGCTATTCATGGGCATTTCCGCGACTGGCTTTTTG                         CCTCTGGTAATATCCGACAAATATATGAGCTTCAAGCACTGGATAGGTTGG
genomic: ACGGGGGGTGATTTTGGCTATTCATGGGCATTTCCGCGACTGGCTTTTTGgtaatctcat ... atatatgcagCCTCTGGTAATATCCGACAAATATATGAGCTTCAAGCACTGGATAGGTTGG
EST: gi|162161486|gb|FC337653.1|FC337653
EST:     ACGGGGGGTGATTTTGGCTATTCATGGGCATTTCCGCGACTGGCTTTTTG                         CCTCTGGTAATATCCGACAAATATATGAGCTTCAAGCACTGGATAGGTTGG
genomic: ACGGGGGGTGATTTTGGCTATTCATGGGCATTTCCGCGACTGGCTTTTTGgtaatctcat ... atatatgcagCCTCTGGTAATATCCGACAAATATATGAGCTTCAAGCACTGGATAGGTTGG
EST: gi|162173812|gb|FC349404.1|FC349404
EST:     ACGGGGGGTGATTTTGGCTATTCATGGGCATTTCCGCGACTGGCTTTTTG                         CCTCTGGTAATATCCGACAAATATATGAGCTTCAAGCACTGGATAGGTTGG
genomic: ACGGGGGGTGATTTTGGCTATTCATGGGCATTTCCGCGACTGGCTTTTTGgtaatctcat ... atatatgcagCCTCTGGTAATATCCGACAAATATATGAGCTTCAAGCACTGGATAGGTTGG
EST: gi|162173811|gb|FC349403.1|FC349403
EST:     CGGGGGGTGATTTTGGCTATTCATGGGCATTTCCGCGACTGGCTTTTTG                         CCTCTGGTAATATCCGACAAATATATGAGCTTCAAGCACTGGATAGGTTGG
genomic: CGGGGGGTGATTTTGGCTATTCATGGGCATTTCCGCGACTGGCTTTTTGgtaatctcat ... atatatgcagCCTCTGGTAATATCCGACAAATATATGAGCTTCAAGCACTGGATAGGTTGG
EST: gi|37835209|gb|BJ593221.1|BJ593221
EST:     NCGGGGGGTGATTTTGGCTATTCATGGGCATTTCCGCGACTGGCTTTTTG                         CCTCTGGTAATATCCGACAAATATATGAGCTTCAAGCACTGGATAGGTTGG
genomic: ACGGGGGGTGATTTTGGCTATTCATGGGCATTTCCGCGACTGGCTTTTTGgtaatctcat ... atatatgcagCCTCTGGTAATATCCGACAAATATATGAGCTTCAAGCACTGGATAGGTTGG

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: 24 (upstream exon), 29 (downstream exon)
Score: 5

GAGAATCTAAAGCAAAATCTGAAGACCATCACGCTTGAGGAAGGGAAGAAACGGGGGGTGATTTTGGCTATTCATGGGCATTTCCGCGACTGGCTTTTTGgtaatctcat ... atatatgcagCCTCTGGTAATATCCGACAAATATATGAGCTTCAAGCACTGGATAGGTTGGACAGCGTAGGCATGGAGTAGAGTTTCCAGCACTGAGATTTATTGTCCAT




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