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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggggtaatgccttttattttgtttttttatgtttttttgtttttatatcttgggttttcctgtggttcttggctgcttctgactacgggtttggtaccagGACTTGGTTTACTCTGACAGGGATGATCCAGTTCAGCCCATGGTGACATCTCCATTTGGTCATGCCTCTCAG

Basic information

species Physcomitrella patens
transcript PP1S14_116V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S14_116V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ11004 (Selaginella moellendorffii), 3'ss of exon 5
ggggtaatgccttttattttgtttttttatgtttttttgtttttatatcttgggttttcctgtggttcttggctgcttctgactacgggtttggtaccagGACTTGGTTTACTCTGACAGGGATGATCCAGTTCAGCCCATGGTGACATCTCCATTTGGTCATGCCTCTCAG
                                           ||| ||| |  | ||    || ||| ||   || |     |   | |      |||||||   ||  | || ||| |||||||||||||||| ||  |||| ||  |||||||||||||||| ||||||
------------------------------------------gtatgtctcgtctatt----tgattcatgcaagcattactttcttgttccacatccagGACGCTGTCCAGTCGGACCGGGATGATCCAGTTCAACCTCTGGTTACTCCTCCATTTGGTCATGCATCTCAG

upper sequence: PP1S14_116V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ04910 (Selaginella moellendorffii), 3'ss of exon 5
ggggtaatgccttttattttgtttttttatgtttttttgtttttatatcttgggttttcctgtggttcttggctgcttctgactacgggtttggtaccagGACTTGGTTTACTCTGACAGGGATGATCCAGTTCAGCCCATGGTGACATCTCCATTTGGTCATGCCTCTCAG
                                           ||| |||||  | ||    || ||| ||   || |     |   | |      |||||||   ||  | || ||| |||||||||||||||| ||  |||| ||  |||||||||||||||| ||||||
------------------------------------------gtatgtcttgtctatt----tgattcatgcaagcattactttcttgttccacatccagGACGCTGTCCAGTCGGACCGGGATGATCCAGTTCAACCTCTGGTCACTCCTCCATTTGGTCATGCATCTCAG
















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|100442193|gb|BY963086.1|BY963086
EST:     CATGGGGAGCTCTTCTACTTTTGTTCTCGCTTCTTCTGTCCAGAGGCCTT                         GACTTGGTTTACTCTGACAGGGATGATCCAGTTCAGCCCATGGTGACATCT
genomic: CATGGGGAGCTCTTCTACTTTTGTTCTCGCTTCTTCTGTCCAGAGGCCTTgtgagtattt ... ttggtaccagGACTTGGTTTACTCTGACAGGGATGATCCAGTTCAGCCCATGGTGACATCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatcttgggttttcctgtggttcttggctgcttctgactacgggtttggtaccagGACTTGGTTTACTCTGACAGGGATGATCCAGTTCAGCCCATGGTGACATCTCCATTTGGTCATGCCTCTCAG
                               ttctgac  putative branch site (score: 2)