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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccatatctcctacattacccgcaattgcgtccgggacgaagtgggaatgtgaatattgttcttgtattgcattttacttgatttttattggatcaatcagGTAAAGGTTGCGTCTACACATATGACGCTGTTGGTTCTTACGAGCGTTCGGGATATAGTTCTCAAGGTTCTGGTCAGACACTTATCATGCCCGTCCTGGA

Basic information

species Physcomitrella patens
transcript PP1S54_196V6.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S54_196V6.2 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ28111 (Selaginella moellendorffii), 3'ss of exon 4
ccatatctcctacattacccgcaattgcgtccgggacgaagtgggaatgtgaatattgttcttgtattgcattttacttgatttttattggatcaatcagGTAAAGGTTGCGTCTACACATATGACGCTGTTGGTTCTTACGAGCGTTCGGGATATAGTTCTCAAGGTTCTGGTCAGACACTTATCATGCCCGTCCTGGA
                                          |    |||| |          | ||   | | ||    || ||| | |   |    ||| || || ||||||||||| ||||||||||||||||||||||||||  | ||||||||| | || ||    |||       | || |||||  | |||||
------------------------------------------gtacgtgtggaagaga-----gcatcaaagtcta---aatctttgtggaggcttgtagGCAAGGGATGCGTCTACACTTATGACGCTGTTGGTTCTTACGAGCGGACAGGATATAGTACCCAGGGAAGCGGTGCAGAGTTGATAATGCCGATTCTGGA

upper sequence: PP1S54_196V6.2 (Physcomitrella patens), 3'ss of exon 5
lower sequence: EFJ12002 (Selaginella moellendorffii), 3'ss of exon 4
ccatatctcctacattacccgcaattgcgtccgggacgaagtgggaatgtgaatattgttcttgtattgcatttta--cttgatttttattggatcaatcagGTAAAGGTTGCGTCTACACATATGACGCTGTTGGTTCTTACGAGCGTTCGGGATATAGTTCTCAAGGTTCTGGTCAGACACTTATCATGCCCGTCCTGGA
                                                     ||   ||     |  | ||   |  ||  || ||| | |   |    ||| || || || |||||||| ||||||||||||||||||||||||||  | ||||||||| | || ||    |||       | || |||||  | |||||
----------------------------------------------------gtacgtttggaagagagaatcaaagtctaaatctttgtggaggcttgtagGCAAGGGATGTGTCTACACTTATGACGCTGTTGGTTCTTACGAGCGGACAGGATATAGTACCCAGGGAAGCGGTGCAGAGTTGATAATGCCGATTCTGGA
















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|100435783|gb|BY961088.1|BY961088
EST:     ATTTTTTCCGTACTATTCATTCAACGTGCTTGGTGGCTTGGACAATGAAG                         GTAAAGGTTGCGTCTACACATATGACGCTGTTGGTTCTTACGAGCGTTCGG
genomic: ATTTTTTCCGTACTATTCATTCAACGTGCTTGGTGGCTTGGACAATGAAGgtgttcagtt ... gatcaatcagGTAAAGGTTGCGTCTACACATATGACGCTGTTGGTTCTTACGAGCGTTCGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgtgaatattgttcttgtattgcattttacttgatttttattggatcaatcagGTAAAGGTTGCGTCTACACATATGACGCTGTTGGTTCTTACGAGCGTTCGGGATATAGTTCTCAAGGTTCTGGTCAGACACTTATCATGCCCGTCCTGGA
                              acttgat  putative branch site (score: 5)
                         attttacttgattttt  TA-rich tract