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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acctgtctttttgggtctaatttttcctttctgtattttcctctagtgaatagcggcattcgtctgcacgattgttaaaacgtctttcggcatgtttcagTGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGCTATTATGGAAATTCTTATTTGCGTGAAATTCGGACGAG

Basic information

species Physcomitrella patens
transcript PP1S159_14V6.1
intron # 10
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|162161561|gb|FC338768.1|FC338768
EST:     CTCATCGCAAACCCTGCCATTCGAGAGTACAACATGTTCTTACAATCAAG                         TGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGC
genomic: CTCATCGCAAACCCTGCCATTCGAGAGTACAACATGTTCTTACAATCAAGgtgagtagtt ... catgtttcagTGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGC
EST: gi|67698890|gb|BJ959123.1|BJ959123
EST:     CTCATCGCAAACCCTGCCATTCGAGAGTACAACATGTTCTTACAATCAAG                         TGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGC
genomic: CTCATCGCAAACCCTGCCATTCGAGAGTACAACATGTTCTTACAATCAAGgtgagtagtt ... catgtttcagTGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGC
EST: gi|15320242|gb|BI488003.1|BI488003
EST:     CCATTCGAGAGTACAACATGTTCTTACAATCAAG                         TGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGC
genomic: CCATTCGAGAGTACAACATGTTCTTACAATCAAGgtgagtagtt ... catgtttcagTGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGC
EST: gi|37850855|gb|BJ608863.1|BJ608863
EST:     CTCATCGCAAACCCTGCCATTCGAGAGTACAACATGTTCTTACAATCAAG                         TGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGC
genomic: CTCATCGCAAACCCTGCCATTCGAGAGTACAACATGTTCTTACAATCAAGgtgagtagtt ... catgtttcagTGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGC
EST: gi|162226159|gb|FC401619.1|FC401619
EST:     ATTCGAGAGTACAACATGTTCTTACAATCAAG                         TGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGC
genomic: ATTCGAGAGTACAACATGTTCTTACAATCAAGgtgagtagtt ... catgtttcagTGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGC
EST: gi|162161560|gb|FC338767.1|FC338767
EST:     CTCATCGCAAACCCTGCCATTCGAGAGTACAACATGTTCTTACAATCAAG                         TGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGC
genomic: CTCATCGCAAACCCTGCCATTCGAGAGTACAACATGTTCTTACAATCAAGgtgagtagtt ... catgtttcagTGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGC
EST: gi|208389327|gb|DC953165.1|DC953165
EST:     CTCATCGCAAACCCTGCCATTCGAGAGTACAACATGTTCTTACAATCAAG                         TGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGC
genomic: CTCATCGCAAACCCTGCCATTCGAGAGTACAACATGTTCTTACAATCAAGgtgagtagtt ... catgtttcagTGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGC
EST: gi|162276275|gb|FC452408.1|FC452408
EST:     CTCATCGCAAACCCTGCCATTCGAGAGTACAACATGTTCTTACAATCAAG                         TGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGC
genomic: CTCATCGCAAACCCTGCCATTCGAGAGTACAACATGTTCTTACAATCAAGgtgagtagtt ... catgtttcagTGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgaatagcggcattcgtctgcacgattgttaaaacgtctttcggcatgtttcagTGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGCTATTATGGAAATTCTTATTTGCGTGAAATTCGGACGAG
                         attgttaaaa  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acctgtctttttgggtctaatttttcctttctgtattttcctctagtgaatagcggcattcgtctgcacgattgttaaaacgtctttcggcatgtttcagTGATATGAATAAGAAGCTTGGTGCATTCTGTTGGATGGGTCTTTCCATAGCTATTATGGAAATTCTTATTTGCGTGAAATTCGGACGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgcacg