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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactcggttatttcttgtgtatatgtgcaggttcatttgtttctgataaatggccgattcctgtttgcacttttgaggactatagaatttgaaaaaaccatcgtctcacaaattctctgtatctaaaatcgtaaattatgattgtggcagGATTTGTGGATGGCTTGGGGATGGGCAACAACACAAAG

Basic information

species Physcomitrella patens
transcript PP1S99_87V6.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S99_87V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: EFJ07835 (Selaginella moellendorffii), 3'ss of exon 7
gtactcggttatttcttgtgtatatgtgcaggttcatttgtttctgataaatggccgattcctgtttgcacttttgaggactatagaatttgaaaaaaccatcgtctcacaaattctctgtatctaaaatcgtaaattatgatt--gtggcagGATTTGTGGATGGCTTGGGGATGGGCAACAACACAAAG
                                                                                              ||| | ||   |||     ||     ||| | || |  ||   | ||||      |||||  | |||||||||||||  ||||||||||||||||||
--------------------------------------------------------------------------------------------gtaaagctattcactc-----tttcgcatatattaagttatactctttgatgtaaccgcagGTCTGGTGGATGGCTTGGACATGGGCAACAACACAAAG

upper sequence: PP1S99_87V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: EFJ07277 (Selaginella moellendorffii), 3'ss of exon 7
gtactcggttatttcttgtgtatatgtgcaggttcatttgtttctgataaatggccgattcctgtttgcacttttgaggactatagaatttgaaaaaaccatcgtctcacaaattctctgtatctaaaatcgtaaattatgatt--gtggcagGATTTGTGGATGGCTTGGGGATGGGCAACAACACAAAG
                                                                                              ||| | ||   |||     |    | ||| |||| |  ||   | ||||      |||||  | |||||||||||||  ||||||||||||||||||
--------------------------------------------------------------------------------------------gtaaagctattcactctt---tcgcatatat-taaagttatactctttgatgtaaccgcagGTCTGGTGGATGGCTTGGACATGGGCAACAACACAAAG
















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|162234093|gb|FC410333.1|FC410333
EST:     AGGAGTTGAGCTGTGTGGTACATTGAAGAATGTGGTAGCAATAGCTGCGG                         GATTTGTGGATGGCTTGGGGATGGGCAACAACACAAAG
genomic: AGGAGTTGAGCTGTGTGGTACATTGAAGAATGTGGTAGCAATAGCTGCGGgtactcggtt ... attgtggcagGATTTGTGGATGGCTTGGGGATGGGCAACAACACAAAG
EST: gi|100407580|gb|BY991764.1|BY991764
EST:     AGGAGTTGAGCTGTGTGGTACATTGAAGAATGTGGTAGCAATAGCTGCGG                         GATTTGTGGATGGCTTGGGGATGGGCAACAACACAAAG
genomic: AGGAGTTGAGCTGTGTGGTACATTGAAGAATGTGGTAGCAATAGCTGCGGgtactcggtt ... attgtggcagGATTTGTGGATGGCTTGGGGATGGGCAACAACACAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaccatcgtctcacaaattctctgtatctaaaatcgtaaattatgattgtggcagGATTTGTGGATGGCTTGGGGATGGGCAACAACACAAAG
                         atctaaa  putative branch site (score: 3)
                            taaaatcgtaaattat  TA-rich tract