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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaattgtttgactgatggatttaagatactggattgttgttcttcacttccaggtggtatagatccccacactcaccttgcgatgccattcatgggccagGAGACTTGCGATGACTACTTCAGTGGACAAGCAGCAGCTCTAGCGGGAGGCACCACCATGCATATCGACTTCGCTCTCCCCGTGGACGGAAACCTTGCAG

Basic information

species Physcomitrella patens
transcript PP1S101_168V6.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S101_168V6.2 (Physcomitrella patens), 3'ss of exon 3
lower sequence: EFJ32862 (Selaginella moellendorffii), 3'ss of exon 2
---------aaattgtttgactg-atggatttaagatactggattgttgttcttcacttccaggtggtatagatccccacactcaccttgcgatgccattcatgggccagGAGACTTGCGATGACTACTTCAGTGGACAAGCAGCAGCTCTAGCGGGAGGCACCACCATGCATATCGACTTCGCTCTCCCCGTGGACGGAAACCTTGCAG
         || || ||     | ||   |||    |  |      ||  | ||  |||| ||| || || ||||| ||||| ||||| || ||||| |||||||||||||| |||||||| |||| ||||||||| ||||| || |||||||| ||||| ||                                               
gtgaggattaacttcttctctcgcatttcttttcattgtttctacatttgtttttgcttc-agGAGGGATTGATCCTCACACACACCTCGCAATGCCGTTCATGGGCCAGGAAACTTGCGACGACTTCTTCAGTGGCCAAGCCGCTGCTCTAGCCGGAGGTAC-----------------------------------------------

upper sequence: PP1S101_168V6.2 (Physcomitrella patens), 3'ss of exon 3
lower sequence: EFJ14600 (Selaginella moellendorffii), 3'ss of exon 2
---------aaattgtttgactg-atggatttaagatactggattgttgttcttcacttccaggtggtatagatccccacactcaccttgcgatgccattcatgggccagGAGACTTGCGATGACTACTTCAGTGGACAAGCAGCAGCTCTAGCGGGAGGCACCACCATGCATATCGACTTCGCTCTCCCCGTGGACGGAAACCTTGCAG
         |  || ||     | ||   |||    |  |      ||  | ||| |||| ||| || || ||||| ||||| ||||| || ||||| |||||||||||||| ||||||||||||| ||||||||| ||||| || || ||||| ||||| ||                                               
gtgaggattagcttcttctctcgcatttcttttcattgtttctacatttgttttcgcttc-agGAGGGATTGATCCTCACACACACCTCGCAATGCCGTTCATGGGCCAGGAAACTTGCGATGACTTCTTCAGTGGCCAAGCCGCTGCGCTAGCCGGAGGTAC-----------------------------------------------
















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|18347661|gb|BJ179708.1|BJ179708
EST:     GGTTGATGGTGTTCGAGTTATCGATGCAACAGGAAAATTCGTCATGCCAG                         GAGACTTGCGATGACTACTTCAGTGGACAAGCAGCAGCTCTAGCGGGAGGC
genomic: GGTTGATGGTGTTCGAGTTATCGATGCAACAGGAAAATTCGTCATGCCAGgtatgttttt ... catgggccagGAGACTTGCGATGACTACTTCAGTGGACAAGCAGCAGCTCTAGCGGGAGGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttccaggtggtatagatccccacactcaccttgcgatgccattcatgggccagGAGACTTGCGATGACTACTTCAGTGGACAAGCAGCAGCTCTAGCGGGAGGCACCACCATGCATATCGACTTCGCTCTCCCCGTGGACGGAAACCTTGCAG
                        cactcac  putative branch site (score: 2)
            tatagat  TA-rich tract