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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcctttgttgctgtcgtgcttgactaacttgaaaggtttgctttttttgtgaatatatcaacctggagctgattttgggattttgctactggtggttcagGTCATCTCGGCCTTGCAGAGTGCGGGCAGTCAAATGAAACAACCCCTAACAAATTTGTTCACGGATGTATATGACACCATTCCCAGAAATCTCATACAAC

Basic information

species Physcomitrella patens
transcript PP1S207_68V6.1
intron # 8
splice site 3'
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|162156822|gb|FC333634.1|FC333634
EST:     GGTGGGACACGGATGCAGAGCAGAAGCTTCGATCCGATGCACGCAATGAG                         GTCATCTCGGCCTTGCAGAGTGCGGGCAGTCAAATGAAACAACCCCTAACA
genomic: GGTGGGACACGGATGCAGAGCAGAAGCTTCGATCCGATGCACGCAATGAGgtttgccatt ... ggtggttcagGTCATCTCGGCCTTGCAGAGTGCGGGCAGTCAAATGAAACAACCCCTAACA
EST: gi|208365042|gb|DC947306.1|DC947306
EST:     GGTGGGACACGGATGCAGAGCAGAAGCTTCGATCCGATGCACGCAATGAG                         GTCATCTCGGCCTTGCAGAGTGCGGGCAGTCAAATGAAACAACCCCTAACA
genomic: GGTGGGACACGGATGCAGAGCAGAAGCTTCGATCCGATGCACGCAATGAGgtttgccatt ... ggtggttcagGTCATCTCGGCCTTGCAGAGTGCGGGCAGTCAAATGAAACAACCCCTAACA
EST: gi|162255612|gb|FC431610.1|FC431610
EST:     GGTGGGACACGGATGCAGAGCAGAAGCTTCGATCCGATGCACGCAATGAG                         GTCATCTCGGCCTTGCAGAGTGCGGGCAGTCAAATGAAACAACCCCTAACA
genomic: GGTGGGACACGGATGCAGAGCAGAAGCTTCGATCCGATGCACGCAATGAGgtttgccatt ... ggtggttcagGTCATCTCGGCCTTGCAGAGTGCGGGCAGTCAAATGAAACAACCCCTAACA
EST: gi|18335077|gb|BJ167095.1|BJ167095
EST:     GCAGAGCAGAAGCTTCGATCCGATGCACGCAATGAG                         GTCATCTCGGCCTTGCAGAGTGCGGGCAGTCAAATGAAACAACCCCTAACA
genomic: GCAGAGCAGAAGCTTCGATCCGATGCACGCAATGAGgtttgccatt ... ggtggttcagGTCATCTCGGCCTTGCAGAGTGCGGGCAGTCAAATGAAACAACCCCTAACA
EST: gi|162152381|gb|FC328568.1|FC328568
EST:     GGTGGGACACGGATGCAGAGCAGAAGCTTCGATCCGATGCACGCAATGAG                         GTCATCTCGGCCTTGCAGAGTGCGGGCAGTCAAATGAAACAACCCCTAACA
genomic: GGTGGGACACGGATGCAGAGCAGAAGCTTCGATCCGATGCACGCAATGAGgtttgccatt ... ggtggttcagGTCATCTCGGCCTTGCAGAGTGCGGGCAGTCAAATGAAACAACCCCTAACA
EST: gi|162156823|gb|FC333635.1|FC333635
EST:     GGTGGGACACGGATGCAGAGCAGAAGCTTCGATCCGATGCACGCAATGAG                         GTCATCTCGGCCTTGCAGAGTGCGGGCAGTCAAATGAAACAACCCCTAACA
genomic: GGTGGGACACGGATGCAGAGCAGAAGCTTCGATCCGATGCACGCAATGAGgtttgccatt ... ggtggttcagGTCATCTCGGCCTTGCAGAGTGCGGGCAGTCAAATGAAACAACCCCTAACA

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: 35 (upstream exon), 26 (downstream exon)
Score: 5

AATGCGTGATCCAGTTTTGCGTTTCCGACGTTGGTTGGAAGGAGAAGGATGGTGGGACACGGATGCAGAGCAGAAGCTTCGATCCGATGCACGCAATGAGgtttgccatt ... ggtggttcagGTCATCTCGGCCTTGCAGAGTGCGGGCAGTCAAATGAAACAACCCCTAACAAATTTGTTCACGGATGTATATGACACCATTCCCAGAAATCTCATACAAC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtgaatatatcaacctggagctgattttgggattttgctactggtggttcagGTCATCTCGGCCTTGCAGAGTGCGGGCAGTCAAATGAAACAACCCCTAACAAATTTGTTCACGGATGTATATGACACCATTCCCAGAAATCTCATACAAC
                     agctgat  putative branch site (score: 5)
      aatatatcaa  TA-rich tract