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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCACTTGGAGGTACGACATTCAAGATGAAATTTGGTCATCACGGTGGAAATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAGgtcatagtcatgattcaagttcatcttttgacttctgcaaatacatgctgactttgtgctagattacatgacataaagttctgtgcagaatgacacggat...

Basic information

species Physcomitrella patens
transcript PP1S42_59V6.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S42_59V6.2 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GLYMA06G15510.3 (Glycine max), 5'ss of exon 8
GGCACTTGGAGGTACGACATTCAAGATGAAATTTGGTCATCACGGTGGAAATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAGgtcatagtcatgattcaagttc---atcttttgacttctgcaaatacatgctgactttgtgctagattacatgacataaagttctgtgcagaatgacacggat
|||  | |||||||  || |||||||||||||||||||| || || ||||||||||| |||||| || | |  |  ||||  || ||||| ||||| ||||| ||    |  |   |  |||   | ||| | | ||||  |      |||      |    ||| ||| ||   || |||| |  |   |  ||    ||| 
GGCTTTAGGAGGTAAAACCTTCAAGATGAAATTTGGTCACCATGGAGGAAATCATCCTGTTCGCAACCTTCGAAGTGGCCATGTTGAAATTAGTGCTCAGgt-atgcgaactaaaaagtttctgtaacttcttatttcttaagtgttctgccataactaaaatag-ttaaattcaatcaagtccattat-gtgtgctgaggag

upper sequence: PP1S42_59V6.2 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GLYMA05G32190.1 (Glycine max), 5'ss of exon 8
GGCACTTGGAGGTACGACATTCAAGATGAAATTTGGTCATCACGGTGGAAATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAGgtcatagtcatgattcaagttcatcttttgacttctgcaaatacatgctga-ctttgtgctagattacatgacataaagttctgtgcagaatgacacggat-------
|||  | ||||| |  || || |||||||||||||||||||| || ||||||||||| |||||  || | |  || ||||  || ||||| ||||| |||||        ||||| || |  |  |||   || |   || |   || | |  |||||  | | |       ||  |  |  |||| | |||  || | ||       
GGCTTTAGGAGGCAAAACCTTTAAGATGAAATTTGGTCATCATGGAGGAAATCATCCTGTTCGTAACCTTCGAACTGGCCAGGTTGAAATTAGTGCTCAGgta-----tgtgatt-aaatggacttttcttctacactaattctttgataaattttgtagt-gttccttctccaccatatcttgtgtaaaatc-catgaatcttttag

upper sequence: PP1S42_59V6.2 (Physcomitrella patens), 5'ss of exon 9
lower sequence: Vv04s0044g00550.t01 (Vitis vinifera), 5'ss of exon 8
GGCACTTGGAGGTACGACATTCAAGATGAAATTTGGTCATCACGGTGGAAATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAGgtcatagtcat---gattcaagttcatcttttgacttctgcaaatacatgctgactttgtgctagattacatgacataaagttctgtgcagaatgacacggat--
|||| | || ||||  || || || ||||| |||||||| || ||||||||||||||||||||  || | |  |  || ||||| || |||||||| |||||  |  |||    ||     ||| | || || |  | |||||  |||| || | |         |||  |     |  |||||  || | | |||  |   |  
GGCATTGGGTGGTAAAACCTTTAAAATGAAGTTTGGTCACCATGGTGGAAATCATCCAGTTCGTAACCTTCGGAGTGGTCGCGTTGAGATCAGTGCTCAGgt-gtgttcacctagacctctgtttagctattaatgtttgcaagaacat-ctaattcc---tctaattttactttcttcagttccctgtaaattgattcttctgt

upper sequence: PP1S42_59V6.2 (Physcomitrella patens), 5'ss of exon 9
lower sequence: EFJ07419 (Selaginella moellendorffii), 5'ss of exon 7
GGCACTTGGAGGTACGACATTCAAGATGAAATTTGGTCATCACGGTGGAAATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAGgtcatagtcatgattcaagttcatcttttgacttct--gcaaatacatgctgactttgtgctagattacatgacataaagttctgtgcagaatgacacggat
 ||||| || || |  || ||||||||||| ||||| ||||||||||| || ||||| ||||||||  | || || || || || || || ||  |||||||      | |    ||     ||    ||    ||  || ||| | || | | ||  |  |    |  |                                
AGCACTGGGTGGAAAAACGTTCAAGATGAAGTTTGGCCATCACGGTGGTAACCATCCTGTTCGCCATCTTCCTACGGGACGTGTTGAGATTAGCTCCCAGgta-----cgtataccacagctattcactggtcactaagctaatgcttgataatttcattttcctctctag-------------------------------

upper sequence: PP1S42_59V6.2 (Physcomitrella patens), 5'ss of exon 9
lower sequence: EFJ19894 (Selaginella moellendorffii), 5'ss of exon 9
GGCACTTGGAGGTACGACATTCAAGATGAAATTTGGTCATCACGGTGGAAATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAGgtcatagtcatgattcaagttcatcttttgacttctgcaaatacatgctgactttgtgctagattacatgacataaagttctgtgcagaatgacacggat
 ||||| || || |  || ||||||||||| ||||| ||||||||||| || ||||| ||||||||  | || || || || || || || ||  |||||||   | | |  |      ||||    |     |  || ||| | || | | ||  |  |    |  |                                
AGCACTGGGTGGAAAAACGTTCAAGATGAAGTTTGGCCATCACGGTGGTAACCATCCTGTTCGCCATCTTCCTACGGGACGTGTTGAGATTAGCTCCCAGgtacgaattaccacagctattcactggtca--ctaagctaatgcttgataatttctttttcctctttag-------------------------------

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|162188863|gb|FC364877.1|FC364877
EST:     ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAG                         AATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
genomic: ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAGgtcatagtca ... ttgtgcgcagAATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
EST: gi|67726363|gb|BJ976622.1|BJ976622
EST:     ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAG                         AATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
genomic: ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAGgtcatagtca ... ttgtgcgcagAATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
EST: gi|208346539|gb|DC916805.1|DC916805
EST:     ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAG                         AATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
genomic: ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAGgtcatagtca ... ttgtgcgcagAATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
EST: gi|37835241|gb|BJ593253.1|BJ593253
EST:     ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAG                         AATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
genomic: ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAGgtcatagtca ... ttgtgcgcagAATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
EST: gi|37835002|gb|BJ593014.1|BJ593014
EST:     ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAG                         AATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
genomic: ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAGgtcatagtca ... ttgtgcgcagAATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
EST: gi|67720133|gb|BJ970392.1|BJ970392
EST:     ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAG                         AATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
genomic: ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAGgtcatagtca ... ttgtgcgcagAATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
EST: gi|37838511|gb|BJ596519.1|BJ596519
EST:     ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAG                         AATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
genomic: ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAGgtcatagtca ... ttgtgcgcagAATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
EST: gi|37847460|gb|BJ605468.1|BJ605468
EST:     ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAG                         AATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
genomic: ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAGgtcatagtca ... ttgtgcgcagAATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
EST: gi|18340087|gb|BJ172115.1|BJ172115
EST:     ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAG                         AATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
genomic: ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAGgtcatagtca ... ttgtgcgcagAATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
EST: gi|208386523|gb|DC956857.1|DC956857
EST:     ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAG                         AATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
genomic: ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAGgtcatagtca ... ttgtgcgcagAATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
EST: gi|37839736|gb|BJ597744.1|BJ597744
EST:     ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAG                         AATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC
genomic: ATCATCCAGTTCGCCACTTGCCCACCGGCCGCGTGGAAATCAGTGCCCAGgtcatagtca ... ttgtgcgcagAATCACAATTATGCTGTAGATCCCGACACACTTCCTGAGGGTGTGGAAGTC