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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCTCGTTTCAGATCCTAAAACCAGCAGAAAAGAAACAAAAGTTTGTTTCATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAGgtcagcagattttgaagcttaagaagttggtgagaagagttaatggttgtcacttctttcatgactctagattcaaggtctgcaattttcacttttgcttatgttcaaggtgttcatatgtactatggatgcctatgattgtgcattctcttacttgaagtaagactctgagaattgtgtttctgttgagagtgccag

Basic information

species Physcomitrella patens
transcript PP1S97_286V6.1
intron # 4
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|67579398|gb|BJ951519.1|BJ951519
EST:     CATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAG                         GGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAATG
genomic: CATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAGgtcagcagat ... agagtgccagGGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAATG
EST: gi|18336617|gb|BJ168640.1|BJ168640
EST:     CATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAG                         GGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAATG
genomic: CATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAGgtcagcagat ... agagtgccagGGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAATG
EST: gi|162279247|gb|FC455794.1|FC455794
EST:     CATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAG                         GGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAATG
genomic: CATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAGgtcagcagat ... agagtgccagGGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAATG
EST: gi|37841204|gb|BJ599212.1|BJ599212
EST:     CATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAG                         GGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAATG
genomic: CATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAGgtcagcagat ... agagtgccagGGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAATG
EST: gi|208365988|gb|DC951111.1|DC951111
EST:     CATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAG                         GGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAATG
genomic: CATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAGgtcagcagat ... agagtgccagGGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAATG
EST: gi|162279246|gb|FC455793.1|FC455793
EST:     CATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAG                         GGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAATG
genomic: CATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAGgtcagcagat ... agagtgccagGGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAATG
EST: gi|208381547|gb|DC923133.1|DC923133
EST:     CATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAG                         GGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAGTG
genomic: CATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAGgtcagcagat ... agagtgccagGGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAATG
EST: gi|37822157|gb|BJ580223.1|BJ580223
EST:     CATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAG                         GGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAATG
genomic: CATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAGgtcagcagat ... agagtgccagGGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAATG
EST: gi|162176651|gb|FC352496.1|FC352496
EST:     CATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAG                         GGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAATG
genomic: CATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAGgtcagcagat ... agagtgccagGGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAATG

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: 17 (upstream exon), 21 (downstream exon)
Score: 2

GTGCTCGTTTCAGATCCTAAAACCAGCAGAAAAGAAACAAAAGTTTGTTTCATACGGAAATAATGCCTCACGACCTGGAACCCCGCCTCGTGTAGTTAAGgtcagcagat ... agagtgccagGGATAATATCGGATGATGGACATGAGCGTGAGAAACAAAGTTATTAAAATGAGCACTTAAAAAAGCTGGTGCCTTATTTTCTTGAGGCTCAGATGATGGA




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