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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcgcagcctatttgccgatattcccatcagtgccgcccgtattctgcctagtcagtgagtgaatgataaaatattccaatttacgtggcttttttcgcagATGTGCATAATGCTCTGTGCAGATCATGGCCCTGCTGTGTCTGGAGCACACAACACTATTGTCACTGCTCGTGCAGGAAAGGACTTGGTATCAAGTCTTG

Basic information

species Physcomitrella patens
transcript PP1S46_63V6.4
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S46_63V6.2 (Physcomitrella patens), 3'ss of exon 11
lower sequence: Vv05s0077g00950.t01 (Vitis vinifera), 3'ss of exon 12
-----------------------------------------------------------------------------------------tcgcagcctatttgccgatattcc-catcagtgccgcccgtattctgcctagtcag---tgagtgaatgataaaatatt-ccaatttacgtggcttttttcgcagATGTGCATAATGCTCTGTGCAGATCATGGCCCTGCTGTGTCTGGAGCACACAACACTATTGTCACTGCTCGTGCAGGAAAGGACTTGGTATCAAGTCTTG
                                                                                         |  || | | |||  |  | |||    | | |    |  || || ||   |  ||    || || |  | |    | || | |||  |  || | || |||  |||| ||||| ||| | ||||| |||||||||||   ||| ||||| || |||||||||||||| || ||  | |||||||||||| | ||||| |||||||
gtagatttctcttactatagagcctttaatgaatccttctcttttttttttcattagaaacttgtttttttttactatgcttatttagcttacatcatttttttcccttttcgattttaattaaacatgtcttttgtggaaacaaaattgtgttatagctgttgtcttactaatgcatatgaccttgttc--agATCTGCATCATGTTATGTGCTGATCATGGCCCCTGTGTCTCTGGTGCTCACAACACTATTGTTACAGCAAGGGCAGGAAAGGACCTCGTATCCAGTCTTG

upper sequence: PP1S46_63V6.2 (Physcomitrella patens), 3'ss of exon 11
lower sequence: EFJ33298 (Selaginella moellendorffii), 3'ss of exon 11
tcgcagcctatttgccgatattcccatcagtgccgcccgtattctgcctagtcagtgagtgaatgataaaatattccaatttacgtggctttttt--cgcagATGTGCATAATGCTCTGTGCAGATCATGGCCCTGCTGTGTCTGGAGCACACAACACTATTGTCACTGCTCGTGCAGGAAAGGACTTGGTATCAAGTCTTG
                                                ||  || | | |   | |  |||| ||    ||  |   | ||  |   ||||||||||||| || || || |||||||| |||||   ||| ||||||||||||||| | || |||||| |||| || || || |||||||| ||  | ||||
-----------------------------------------------gtaagcattcatt--ttcagtaaattttgtggttctccaagtttcctcgacgcagATGTGCATTATCCTGTGCGCAGATCACGGCCCATGTGTTTCTGGAGCACACAACTCCATAGTCACTTCTCGAGCTGGGAAAGACTTGGTTTCTTGCCTTG
















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|67574889|gb|BJ947713.1|BJ947713
EST:     TGCTTTGGTTCAGGCGTAGTTTGCCTCGCTACTGTACTAAGTTCATCGAG                         ATGTGCATAATGCTCTGTGCAGATCATGGCCCTGCTGTGTCTGGAGCACAC
genomic: TGCTTTGGTTCAGGCGTAGTTTGCCTCGCTACTGTACTAAGTTCATCGAGgtattaactc ... tttttcgcagATGTGCATAATGCTCTGTGCAGATCATGGCCCTGCTGTGTCTGGAGCACAC
EST: gi|208366526|gb|DC955602.1|DC955602
EST:     TGCTTTGGTTCAGGCGTAGTTTGCCTCGCTACTGTACTAAGTTCATCGAG                         ATGTGCATAATGCTCTGTGCAGATCATGGCCCTGCTGTGTCTGGAGCACAC
genomic: TGCTTTGGTTCAGGCGTAGTTTGCCTCGCTACTGTACTAAGTTCATCGAGgtattaactc ... tttttcgcagATGTGCATAATGCTCTGTGCAGATCATGGCCCTGCTGTGTCTGGAGCACAC
EST: gi|162196012|gb|FC372183.1|FC372183
EST:     TGCTTTGGTTCAGGCGTAGTTTGCCTCGCTACTGTACTAAGTTCATCGAG                         ATGTGCATAATGCTCTGTGCAGATCATGGCCCTGCTGTGTCTGGAGCACAC
genomic: TGCTTTGGTTCAGGCGTAGTTTGCCTCGCTACTGTACTAAGTTCATCGAGgtattaactc ... tttttcgcagATGTGCATAATGCTCTGTGCAGATCATGGCCCTGCTGTGTCTGGAGCACAC
EST: gi|100385297|gb|BY950889.1|BY950889
EST:     TGCTTTGGTTCAGGCGTAGTTTGCCTCGCTACTGTACTAAGTTCATCGAG                         ATGTGCATAATGCTCTGTGCAGATCATGGCCCTGCTGTGTCTGGAGCACAC
genomic: TGCTTTGGTTCAGGCGTAGTTTGCCTCGCTACTGTACTAAGTTCATCGAGgtattaactc ... tttttcgcagATGTGCATAATGCTCTGTGCAGATCATGGCCCTGCTGTGTCTGGAGCACAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcctagtcagtgagtgaatgataaaatattccaatttacgtggcttttttcgcagATGTGCATAATGCTCTGTGCAGATCATGGCCCTGCTGTGTCTGGAGCACACAACACTATTGTCACTGCTCGTGCAGGAAAGGACTTGGTATCAAGTCTTG
                                           cttttttcgc  CT-rich tract
                aatgataaaatattcc  TA-rich tract