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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAACAAGGGGAAGAGGTAGATATATTTGTGGACAATGCTGCTGACCAGCATAACGATCTCGGCTCTGGAACATCCACTACAACTCGGTTGAACAATAAAgtaaatgctgactgtatatctatattttgttccatgaagctttggtagagctgcattttatgtttttctcgcttcattagtttgatttaatagaggagaa...

Basic information

species Physcomitrella patens
transcript PP1S15_331V6.1
intron # 17
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|100354343|gb|BY945829.1|BY945829
EST:     ATAACGATCTCGGCTCTGGAACATCCACTACAACTCGGTTGAACAATAAA                         GTGAAGCTGCTGCGTTCAATGCTGCAATGGGAGCAGGAGCTGCGGCATGAG
genomic: ATAACGATCTCGGCTCTGGAACATCCACTACAACTCGGTTGAACAATAAAgtaaatgctg ... acaaatgcagGTGAAGCTGCTGCGTTCAATGCTGCAATGGGAGCAGGAGCTGCGGCATGAG
EST: gi|162197774|gb|FC375024.1|FC375024
EST:     GTAACGATCTCGGCTCTGGAACATCCACTACAACTCGGTTGAACAATAAA                         GTGAAGCTGCTGCGTTCAATGCTACAATGGGAGCAGGAGCTGCGGCATGAG
genomic: ATAACGATCTCGGCTCTGGAACATCCACTACAACTCGGTTGAACAATAAAgtaaatgctg ... acaaatgcagGTGAAGCTGCTGCGTTCAATGCTGCAATGGGAGCAGGAGCTGCGGCATGAG
EST: gi|162194877|gb|FC368994.1|FC368994
EST:     GTAACGATCTCGGCTCTGGAACATCCACTACAACTCGGTTGAACAATAAA                         GTGAAGCTGCTGCGTTCAATGCTACAATGGGAGCAGGAGCTGCGGCATGAG
genomic: ATAACGATCTCGGCTCTGGAACATCCACTACAACTCGGTTGAACAATAAAgtaaatgctg ... acaaatgcagGTGAAGCTGCTGCGTTCAATGCTGCAATGGGAGCAGGAGCTGCGGCATGAG

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: 32 (upstream exon), 35 (downstream exon)
Score: 16

GGAACAAGGGGAAGAGGTAGATATATTTGTGGACAATGCTGCTGACCAGCATAACGATCTCGGCTCTGGAACATCCACTACAACTCGGTTGAACAATAAAgtaaatgctg ... acaaatgcagGTGAAGCTGCTGCGTTCAATGCTGCAATGGGAGCAGGAGCTGCGGCATGAGGTTGCACCCGATGGGTCAGTGACAATCCTCAATCCGGATCACCCCGAAA




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