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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATTCTGTCAACATGACCGGGGGTGATGCCAAGCCGGCCAAGGCCATACCACTTTATGGCACTTTCGCTGCGTCTGCATTCAGCGCTTGTTGGGCCGAGgtgctagcactgttctctctccctctgggtggttttggtttattgcgattcctcgcagcttagttgggttgggtgaagttgcacacgagtcggattttat...

Basic information

species Physcomitrella patens
transcript PP1S15_443V6.1
intron # 1
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|100358857|gb|BY946723.1|BY946723
EST:     CACTTTATGGCACTTTCGCTGCGTCTGCATTCAGCGCTTGTTGGGCCGAG                         ACTTGTACAATCCCTCTAGATACGGCCAAAGTGAGGTTGCAGCTGCAAGGG
genomic: CACTTTATGGCACTTTCGCTGCGTCTGCATTCAGCGCTTGTTGGGCCGAGgtgctagcac ... gacatggcagACTTGTACAATCCCTCTAGATACGGCCAAAGTGAGGTTGCAGCTGCAAGGG
EST: gi|162262932|gb|FC439299.1|FC439299
EST:     CACTTTATGGCACTTTCGCTGCGTCTGCATTCAGCGCTTGTTGGGCCGAG                         ACTTGTACAATCCCTCTAGATACGGCCAAAGTGAGGTTGCAGCTGCAAGGG
genomic: CACTTTATGGCACTTTCGCTGCGTCTGCATTCAGCGCTTGTTGGGCCGAGgtgctagcac ... gacatggcagACTTGTACAATCCCTCTAGATACGGCCAAAGTGAGGTTGCAGCTGCAAGGG
EST: gi|18356847|gb|BJ188906.1|BJ188906
EST:     CACTTTATGGCACTTTCGCTGCGTCTGCATTCAGCGCTTGTTGGGCCGAG                         ACTTGTACAATCCCTCTAGATACGGCCAAAGTGAGGTTGCAGCTGCAAGGG
genomic: CACTTTATGGCACTTTCGCTGCGTCTGCATTCAGCGCTTGTTGGGCCGAGgtgctagcac ... gacatggcagACTTGTACAATCCCTCTAGATACGGCCAAAGTGAGGTTGCAGCTGCAAGGG
EST: gi|162268961|gb|FC445765.1|FC445765
EST:     CACTTTATGGCACTTTCGCTGCGTCTGCATTCAGCGCTTGTTGGGCCGAG                         ACTTGTACAATCCCTCTAGATACGGCCAAAGTGAGGTTGCAGCTGCAAGGG
genomic: CACTTTATGGCACTTTCGCTGCGTCTGCATTCAGCGCTTGTTGGGCCGAGgtgctagcac ... gacatggcagACTTGTACAATCCCTCTAGATACGGCCAAAGTGAGGTTGCAGCTGCAAGGG
EST: gi|18326905|gb|BJ158905.1|BJ158905
EST:     CACTTTATGGCACTTTCGCTGCGTCTGCATTCAGCGCTTGTTGGGCCGAG                         ACTTGTACAATCCCTCTAGATACGGCCAAAGTGAGGTTGCAGCTGCAAGGG
genomic: CACTTTATGGCACTTTCGCTGCGTCTGCATTCAGCGCTTGTTGGGCCGAGgtgctagcac ... gacatggcagACTTGTACAATCCCTCTAGATACGGCCAAAGTGAGGTTGCAGCTGCAAGGG
EST: gi|100449339|gb|CJ973638.1|CJ973638
EST:     CACTTTATGGCACTTTCGCTGCGTCTGCATTCAGCGCTTGTTGGGCCGAG                         ACTTGTACAATCCCTCTAGATACGGCCAAAGTGAGGTTGCAGCTGCAAGGG
genomic: CACTTTATGGCACTTTCGCTGCGTCTGCATTCAGCGCTTGTTGGGCCGAGgtgctagcac ... gacatggcagACTTGTACAATCCCTCTAGATACGGCCAAAGTGAGGTTGCAGCTGCAAGGG

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: 31 (upstream exon), 34 (downstream exon)
Score: 8

TCATTCTGTCAACATGACCGGGGGTGATGCCAAGCCGGCCAAGGCCATACCACTTTATGGCACTTTCGCTGCGTCTGCATTCAGCGCTTGTTGGGCCGAGgtgctagcac ... gacatggcagACTTGTACAATCCCTCTAGATACGGCCAAAGTGAGGTTGCAGCTGCAAGGGAAAGCGCTAGCAGGTGAACTCAATGCTGCACCCAAGTACAGGGGAATGT




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