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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cagaggcttcggagacagggttgcccaaagatgtctggagcatggaattatttgctagtcattccgtatggacccgaactcacattttttgtttctgcagGTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAACGCTGTCACATTTGGCAAGCGCTCCGATGACCTCGCCACCATTGTATCAG

Basic information

species Physcomitrella patens
transcript PP1S86_156V6.2
intron # 1
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|18369527|gb|BJ201614.1|BJ201614
EST:     CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAG                         GTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
genomic: CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAGgtaccattcg ... gtttctgcagGTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
EST: gi|67702425|gb|BJ962658.1|BJ962658
EST:     CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAG                         GTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
genomic: CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAGgtaccattcg ... gtttctgcagGTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
EST: gi|67702738|gb|BJ962971.1|BJ962971
EST:     CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAG                         GTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
genomic: CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAGgtaccattcg ... gtttctgcagGTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
EST: gi|18369589|gb|BJ201677.1|BJ201677
EST:     CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAG                         GTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
genomic: CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAGgtaccattcg ... gtttctgcagGTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
EST: gi|18327439|gb|BJ159442.1|BJ159442
EST:     CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAG                         GTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
genomic: CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAGgtaccattcg ... gtttctgcagGTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
EST: gi|162165551|gb|FC340662.1|FC340662
EST:     CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAG                         GTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
genomic: CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAGgtaccattcg ... gtttctgcagGTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
EST: gi|67703574|gb|BJ963807.1|BJ963807
EST:     CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAG                         GTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
genomic: CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAGgtaccattcg ... gtttctgcagGTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
EST: gi|67703081|gb|BJ963314.1|BJ963314
EST:     CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAG                         GTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
genomic: CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAGgtaccattcg ... gtttctgcagGTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
EST: gi|100388525|gb|BY952127.1|BY952127
EST:     CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAG                         GTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
genomic: CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAGgtaccattcg ... gtttctgcagGTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
EST: gi|67576301|gb|BJ949125.1|BJ949125
EST:     CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAG                         GTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC
genomic: CTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAGgtaccattcg ... gtttctgcagGTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAAC

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), 35 (downstream exon)
Score: 22

CCCTCCCTCTCTTGCTCCGGCAAGCCTCTTGCTGGATCTCTTCCCCATGGCTTCCACCGCGTTCGCCGCGGCCACTGCACCCAGCTCTGCCTCCCTCAAGgtaccattcg ... gtttctgcagGTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAACGCTGTCACATTTGGCAAGCGCTCCGATGACCTCGCCACCATTGTATCAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattatttgctagtcattccgtatggacccgaactcacattttttgtttctgcagGTTGCTGGATGTAATGGATTCTCCGACTTCTCCGGAATGAAGAGCACCAACGCTGTCACATTTGGCAAGCGCTCCGATGACCTCGCCACCATTGTATCAG
                               aactcac  putative branch site (score: 22)
                                     cattttttgtttct  CT-rich tract
                                      attttttgttt  TA-rich tract