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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCGAAGCCAAACTCCCACCTGCTACCTCCAATGTGGACAGAGTTCTCAATGTTTTTGCCCCCTTCGGCATGAGCATAGCCGAGAGTGTTGCCATTCTAGgtacgctagcttttccgtatcatgagcgattgtatttaccaagcctgcaaagaagttattgtttgaacccacaagcttccttgaattcgttcactctctgaatcttagccgtctttatttttgtttgcag

Basic information

species Physcomitrella patens
transcript PP1S62_126V6.1
intron # 2
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|100403159|gb|BY991064.1|BY991064
EST:     TGTTTTTGCCCCCTTCGGCATGAGCATAGCCGAGAGTGTTGCCATTCTAG                         GTGCTCACACTCTCGGAGTAGGACACTGTAAAAACATCCAAGATCGTCTGC
genomic: TGTTTTTGCCCCCTTCGGCATGAGCATAGCCGAGAGTGTTGCCATTCTAGgtacgctagc ... ttgtttgcagGTGCTCACACTCTCGGAGTAGGACACTGTAAAAACATCCAAGATCGTCTGC
EST: gi|67712643|gb|BJ966092.1|BJ966092
EST:     TGTTTTTGCCCCCTTCGGCATGAGCATAGCCGAGAGTGTTGCCATTCTAG                         GTGCTCACACTCTCGGAGTANGACACTGTAAAAACATCCAAGATCGTCTGC
genomic: TGTTTTTGCCCCCTTCGGCATGAGCATAGCCGAGAGTGTTGCCATTCTAGgtacgctagc ... ttgtttgcagGTGCTCACACTCTCGGAGTAGGACACTGTAAAAACATCCAAGATCGTCTGC
EST: gi|208345489|gb|DC913036.1|DC913036
EST:     TGTTTTTGCCCCCTTCGGCATGAGCATAGCCGAGAGTGTTGCCATTCTAG                         GTGCTCACACTCTCGGAGTAGGACACTGTAAAAACATCCAAGATCGTCTGC
genomic: TGTTTTTGCCCCCTTCGGCATGAGCATAGCCGAGAGTGTTGCCATTCTAGgtacgctagc ... ttgtttgcagGTGCTCACACTCTCGGAGTAGGACACTGTAAAAACATCCAAGATCGTCTGC
EST: gi|208356787|gb|DC926798.1|DC926798
EST:     GTTTTTGCCCCCTTCGGCATGAGCATAGCCGAGAGTGTTGCCATTTCTAG                         GTGCTCACACTCTCGGAGTAGGACACTGTAAAAACATCCAAGATCGTCTG
genomic: GTTTTTGCCCCCTTCGGCATGAGCATAGCCGAGAGTGTTGCCA-TTCTAGgtacgctagc ... ttgtttgcagGTGCTCACACTCTCGGAGTAGGACACTGTAAAAACATCCAAGATCGTCTG
EST: gi|208344732|gb|DC905181.1|DC905181
EST:     TGTTTTTGCCCCCTTCGGCATGAGCATAGCCGAGAGTGTTGCCATTCTAG                         GTGCTCACACTCTCGGAGTAGGACACTGTAAAAACATCCAAGATCGTCTGC
genomic: TGTTTTTGCCCCCTTCGGCATGAGCATAGCCGAGAGTGTTGCCATTCTAGgtacgctagc ... ttgtttgcagGTGCTCACACTCTCGGAGTAGGACACTGTAAAAACATCCAAGATCGTCTGC
EST: gi|208399317|gb|DC912490.1|DC912490
EST:     TGTTTTTGCCCCCTTCGGCATGAGCATANCCGAGAGTGTTGCCATTCTAG                         GTGCTCACACTCTCGGAGT
genomic: TGTTTTTGCCCCCTTCGGCATGAGCATAGCCGAGAGTGTTGCCATTCTAGgtacgctagc ... ttgtttgcagGTGCTCACACTCTCGGAGT
EST: gi|208367921|gb|DC950974.1|DC950974
EST:     TGTTTTTGCCCCCTTCGGCATGAGCATAGCCGAGAGTGTTGCCATTCTAG                         GTGCTCACACTCTCGGAGTAGGACACTGTAAAAACATCCAAGATCGTCTGC
genomic: TGTTTTTGCCCCCTTCGGCATGAGCATAGCCGAGAGTGTTGCCATTCTAGgtacgctagc ... ttgtttgcagGTGCTCACACTCTCGGAGTAGGACACTGTAAAAACATCCAAGATCGTCTGC

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: 33 (upstream exon), 33 (downstream exon)
Score: 12

GCCGAAGCCAAACTCCCACCTGCTACCTCCAATGTGGACAGAGTTCTCAATGTTTTTGCCCCCTTCGGCATGAGCATAGCCGAGAGTGTTGCCATTCTAGgtacgctagc ... ttgtttgcagGTGCTCACACTCTCGGAGTAGGACACTGTAAAAACATCCAAGATCGTCTGCAGCTTAATAGTCCAACTGCCCCAAACAGTGTCGTCTATCGCACTCAACT




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