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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAGGACACACCAATGAAAAGAACTTTGTTGGATTGACTGTCAACAGCGAATACATCGCCTGTGGCAGTGAAACGAACGAGGTGTTTGTGTATCATAAGgtattgtcctgattgtatgttctggttttaatttagaatttacatgacgtttcgtgttttttagaactcggttttgtatacatgaggcaaagtgaaattt...

Basic information

species Physcomitrella patens
transcript PP1S135_17V6.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S135_17V6.1 (Physcomitrella patens), 5'ss of exon 12
lower sequence: LOC_Os02g53140.1 (Oryza sativa), 5'ss of exon 12
GAAAGGACACACCAATGAAAAGAACTTTGTTGGATTGACTGTCAACAGCGAATACATCGCCTGTGGCAGTGAAACGAACGAGGTGTTTGTGTATCATAAGgtattgtc---ctgattgtatgttctggtttt--aatttagaattta-catgacgtttcgtgttt---tttagaactcggttttgtata-catgaggcaa-agtgaaattt------------------------
 | ||| ||||  ||||||||||||||||||||  || |||| || | ||| ||||| ||||| || ||||||||||| ||||| ||||| || || |||||| |  |   || ||||  || ||| ||||    || |   ||| | ||| | ||  | || ||   | || |  | ||| |  | |  ||  |   |  | |  || ||                        
CAGAGGGCACAAGAATGAAAAGAACTTTGTTGGGCTGTCTGTAAATAACGAGTACATTGCCTGCGGGAGTGAAACGAATGAGGTTTTTGTTTACCACAAGgtaattgcaagcttattgcctgctcttgtttccgtatctgtgattcagcattatgtgccatgcttaactgtacaggttggtctcctgtggcaccatataccattctaacttcaagtaactctgtaccaattgcag

upper sequence: PP1S135_17V6.1 (Physcomitrella patens), 5'ss of exon 12
lower sequence: GRMZM2G104920_T03 (Zea mays), 5'ss of exon 12
GAAAGGACACACCAATGAAAAGAACTTTGTTGGATTGACTGTCAACAGCGAATACATCGCCTGTGGCAGTGAAACGAACGAGGTGTTTGTGTATCATAAGgtattgtcctgattgta---tgttctggttttaatttagaatttac-atgacgtttcgtgttttttagaactcggttt--tgtatacatgaggcaaagtgaaattt--
 | ||||||||  |||||||||||||||||||| ||| |||| ||||  ||||| || || ||||| ||||| || || ||||| ||||| ||||| |||||| || |  | || |    || ||  |||   ||  || ||  |   | | | |  |||  |      | ||  |    ||  | | | |  | |     | |    
CAGAGGACACAAAAATGAAAAGAACTTTGTTGGCTTGTCTGTGAACAATGAATATATTGCTTGTGGAAGTGAGACAAATGAGGTTTTTGTTTATCACAAGgtaatggcaagcttctgtcctggtcatgttcccatgcagcatgcattgttatgatgtgtgactcaatataatcaatcagatgggttcctaactctacactgattgcag

upper sequence: PP1S135_17V6.1 (Physcomitrella patens), 5'ss of exon 12
lower sequence: GRMZM2G126795_T02 (Zea mays), 5'ss of exon 14
GAAAGGACACACCAATGAAAAGAACTTTGTTGGATTGACTGTCAACAGCGAATACATCGCCTGTGGCAGTGAAACGAACGAGGTGTTTGTGTATCATAAGgtattgtcctgattgta---tgttctggttttaatttagaatttac-atgacgtttcgtgttttttagaactcggttt--tgtatacatgaggcaaagtgaaattt--
 | ||| ||||  |||||||||||||| ||||||||| |||| ||||  || || || || ||||| |||||||| || ||||| ||||| ||||| |||||| |  |  | || |    || ||| |||    |  || ||  |   | ||| |  ||| ||        || ||    ||| | | | |    |       |    
CAGAGGGCACAAAAATGAAAAGAACTTCGTTGGATTGTCTGTGAACAATGAGTATATTGCTTGTGGAAGTGAAACAAATGAGGTTTTTGTTTATCACAAGgtaatcgcaagcttctggcttggtcttgttcccgtgcagcatgcattgttacgatgtgtgattcaccttgatcagtaagatgtgttcctaacttcacactggttgcag

upper sequence: PP1S135_17V6.1 (Physcomitrella patens), 5'ss of exon 12
lower sequence: Vv10s0523g00030.t01 (Vitis vinifera), 5'ss of exon 12
GAAAGGACACACCAATGAAAAGAACTTTGTTGGATTGACTGTCAACAGCGAATACATCGCCTGTGGCAGTGAAACGAACGAGGTGTTTGTGTATCATAAGgtattgtcctgattgtatgttctggttttaatttagaatttacatgacgtttcgtgttttttagaactcggttttgtatacatgaggcaaagtgaaattt
 | ||| ||  | ||||| ||||| ||||| ||  | || || |||||||||||||| ||||||||||||||||| ||||| ||||| | |||||| |||||       |  ||  |    || |  |||     | || ||      ||  |   ||  ||  |  |   || |||  || ||  |             
TAGAGGGCATTCAAATGAGAAGAATTTTGTGGGTCTCACAGTAAACAGCGAATACATTGCCTGTGGCAGTGAAACAAACGAAGTGTTCGCGTATCACAAGgttacaaaatacttcaagaagctagcattag----gcatcta------gtcccaaattaatttaattt---ttgtgttcacttgcag-------------

upper sequence: PP1S135_17V6.1 (Physcomitrella patens), 5'ss of exon 12
lower sequence: EFJ28584 (Selaginella moellendorffii), 5'ss of exon 12
GAAAGGACACACCAATGAAAAGAACTTTGTTGGATTGACTGTCAACAGCGAATACATCGCCTGTGGCAGTGAAACGAACGAGGTGTTTGTGTATCATAAGgtattgtcctgattgtatgttctggttttaatttagaatttacatgacgtttcgtgttttttagaactcggttttgtatacatgaggcaaagtgaaattt
 | ||| ||  | || || ||||||||||| || ||||| || |||||||| ||||| || || || |||||||||||||| ||  | |||||||| ||||||     |   |||  || | |      ||   |||||  |  ||| | ||  ||||| || |      |                             
CACAGGCCATGCTAACGAGAAGAACTTTGTAGGCTTGACAGTTAACAGCGAGTACATTGCGTGCGGTAGTGAAACGAACGAAGTCGTGGTGTATCACAAGgta--agtccatttgattgattttagagaaaaagagaatcaatctgaggcttt-tgtttgtttgttgcgagcag--------------------------

upper sequence: PP1S135_17V6.1 (Physcomitrella patens), 5'ss of exon 12
lower sequence: EFJ20512 (Selaginella moellendorffii), 5'ss of exon 12
GAAAGGACACACCAATGAAAAGAACTTTGTTGGATTGACTGTCAACAGCGAATACATCGCCTGTGGCAGTGAAACGAACGAGGTGTTTGTGTATCATAAGgtattgtcctgattgtatgttctggttttaatttagaatttacatgacgtttcgtgttttttagaactcggttttgtatacatgaggcaaagtgaaattt
 | ||| ||  | || || ||||||||||| || ||||| || |||||||| ||||| || || || |||||||||||||| ||  | |||||||| || |||  ||||   |  |   |||| |    ||   |||||  |  ||| | ||  ||||| || |      |                             
CACAGGCCATGCTAACGAGAAGAACTTTGTAGGCTTGACAGTTAACAGCGAGTACATTGCGTGCGGTAGTGAAACGAACGAAGTCGTGGTGTATCACAAAgtaa-gtccatttgattgattctagagaaaaag-agaatcaatctgaggcttt-tgtttgtttgttgcgagcag--------------------------

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|100393347|gb|BY989832.1|BY989832
EST:     AATACATCGCCTGTGGCAGTGAAACGAACGAAGTGTTTGTGTATCATAAA                         GCCATGTCTAAACCGGCATCTTGGCATAGGTT
genomic: AATACATCGCCTGTGGCAGTGAAACGAACGAGGTGTTTGTGTATCATAAGgtattgtcct ... ttgtctgtagGCCATGTCTAAACCGGCATCTTGGCATAGGTT
EST: gi|162157156|gb|FC333726.1|FC333726
EST:     AATACATCGCCTGTGGCAGTGAAACGAACGAGGTGTTTGTGTATCATAAG                         GCCATGTCTAAACCGGCATCTTGGCATAGGTTTGGATCTCAAGACGCTGAG
genomic: AATACATCGCCTGTGGCAGTGAAACGAACGAGGTGTTTGTGTATCATAAGgtattgtcct ... ttgtctgtagGCCATGTCTAAACCGGCATCTTGGCATAGGTTTGGATCTCAAGACGCTGAG