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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcccattcagtttgtatcgtctcttcttctgcatatcagggaacttcagctgaatgttcctgggcctgtgtcgtgataaataacacacgaggataaaatgattgtgaatgtctttatgtgatattataacatgctgactcgtggtcttttgcttttgcagCTGGAACAATGGGCATTGTGGATTTCACCAACTACGACGATATGAAATACGCC

Basic information

species Physcomitrella patens
transcript PP1S173_12V6.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S173_12V6.3 (Physcomitrella patens), 3'ss of exon 8
lower sequence: EFJ21034 (Selaginella moellendorffii), 3'ss of exon 4
gtatgcccattcagtttgtatcgtctcttcttctgcatatcagggaacttcagctgaatgttcctgggcctgtgtcgtgataaataacacacgaggataaaatgattgtgaatgtctttatgtgatattataacatgctgactcgtggtcttttgcttttgcagCTGGAACAATGGGCATTGTGGATTTCACCAACTACGACGATATGAAATACGCC
                                                                                                                     | |      |||||     |  ||    || | |     | | |   | ||||| |  |||||||||||||||||||| || ||||||||||||||||| 
--------------------------------------------------------------------------------------------------------------------gtaacagtgcattatttttgggggaaagttgttttaactgtgtcgtctcagGAACTACTGGCATTGTGGATTTCACCAATTATGACGATATGAAATACGCG

upper sequence: PP1S173_12V6.3 (Physcomitrella patens), 3'ss of exon 8
lower sequence: EFJ19466 (Selaginella moellendorffii), 3'ss of exon 4
gtatgcccattcagtttgtatcgtctcttcttctgcatatcagggaacttcagctgaatgttcctgggcctgtgtcgtgataaataacacacgaggataaaatgattgtgaatgtctttatgtgatattataacatgctgactcgtggtcttttgcttttgcagCTGGAACAATGGGCATTGTGGATTTCACCAACTACGACGATATGAAATACGCC
                                                                                                                 ||     |||  |||| |    ||  |    || || |     | | |   | ||||| |  |||||||||||||||||||| || ||||||||||||||||| 
-----------------------------------------------------------------------------------------------------------------gtaacagtgtattatttt----tgggggaaagttgtttaactgtgtcgtctcagGAACTACTGGCATTGTGGATTTCACCAATTATGACGATATGAAATACGCG
















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|67574652|gb|BJ947476.1|BJ947476
EST:     GCGCAGGGCTGGCGATGTGTGCTTCGCCCAAGTCTTCCGTGATGGTTCTG                         CTGGAACAATGGGCATTGTGGA
genomic: GCGCAGGGCTGGCGATGTGTGCTTCGCCCAAGTCTTCCGTGATGGTTCTGgtatgcccat ... gcttttgcagCTGGAACAATGGGCATTGTGGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatgtctttatgtgatattataacatgctgactcgtggtcttttgcttttgcagCTGGAACAATGGGCATTGTGGATTTCACCAACTACGACGATATGAAATACGCC
                          tgctgac  putative branch site (score: 2)
                                       tcttttgcttttgc  putative PPT
       tttatgtgatattata  TA-rich tract