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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGGTGAGGCAGGCATCTGCGAAGACCAACGATTTGGCTGGAGATGGCACCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtagtacctatctgagtgccttcttgctctaatgtttgttgttctcgagcacctatttcgctccatttcgtcaattaggtagaagtttaaccagaggcatgaactaaccttgttaaccttttcgtgagcag

Basic information

species Physcomitrella patens
transcript PP1S15_485V6.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S15_485V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: LOC_Os06g02380.2 (Oryza sativa), 5'ss of exon 4
GTTGGTGAGGCAGGCATCTGCGAAGACCAACGATTTGGCTGGAGATGGCACCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgta-gctgt-agtacctatctgagtgccttcttgctctaatgtttgttgttctcgagcacctatttcgctccatttcgtcaattaggtagaagtttaaccagaggcatgaactaaccttgttaaccttttcgtgagcag
|||||| ||||| ||| | || |||||||| ||||| |||||||||||||| ||||| || || |||||||| || || || ||||| |||||||| |||||| ||| | |||    |  ||||  |  | || ||   ||| |   |  | |  ||        ||| |  | || || || || ||  || |        |  |||   ||  | || | |                
GTTGGTTAGGCAAGCAGCAGCAAAGACCAATGATTTAGCTGGAGATGGCACAACTACTTCTGTTGTGCTTGCTCAGGGGCTGATTGCTGAGGGTGTTAAGgtatgctattagttgagacatgagacctctattacttgtatggtcaat-ctgttaagag------tcgtt--aatttgtgaactaagtgaaaat-------aattcatttgct--ctttttcag---------------

upper sequence: PP1S15_485V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GRMZM2G083716_T04 (Zea mays), 5'ss of exon 4
GTTGGTGAGGCAGGCATCTGCGAAGACCAACGATTTGGCTGGAGATGGCACCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtagtacctatctgagtgccttcttgctctaatgtttgttgttctcgagcacctatttcgctccatttcgtcaattaggtagaagtttaaccagaggcatgaactaaccttgttaaccttttcgtgagcag
 ||||| ||||| ||  | || |||||||||||| | ||||||||||| || || ||||| ||||| ||||| || || || ||||| |||||||| |||||    ||   ||       | |   ||  | ||   || |||| |      || ||  ||||  | |        |||  ||  ||     ||  ||||                                     
ATTGGTCAGGCAAGCTGCAGCTAAGACCAACGATCTTGCTGGAGATGGGACAACCACCTCTGTGGTCCTTGCTCAGGGGCTGATTGCTGAGGGTGTTAAGgt----gtgccactagctgaaatttgttgctacttgtatatttgat-----tgatcaagtattgtgttt-------tcagctaaatactgtcttgtccag-------------------------------------

upper sequence: PP1S15_485V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 4
GTTGGTGAGGCAGGCATCTGCGAAGACCAACGATTTGGCTGGAGATGGCACCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtagtacctatctgagtgccttcttgctctaatgtttgttgt--tctcgagcacctatttcgctccattt--cgtcaattagg--tagaagtttaaccagaggcatgaactaaccttgttaaccttttcgtgagcag
 || ||||| || ||| |||| ||||||||||| |||||||| ||||| || || || || || || ||||||||||| || ||||| || |||||||||||   | |       |      ||  |  |     | | |    | ||  |||   | |   ||  | ||   |||   |  || || |   |    || |  |||                                     
ATTAGTGAGACAAGCAGCTGCCAAGACCAACGACTTGGCTGGGGATGGGACAACAACATCTGTTGTTCTTGCACAAGGGCTTATTGCTGAAGGTGTCAAGgtctgtttttgcttaactcttttgtttggtaaacatgaagaacatagtaatctaaggaaatgataacactgtgtttgttgctaactaagatcattcattcattcag-------------------------------------

upper sequence: PP1S15_485V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: EFJ32217 (Selaginella moellendorffii), 5'ss of exon 3
GTTGGTGAGGCAGGCATCTGCGAAGACCAACGATTTGGCTGGAGATGGCACCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtagtacctatctgagtgccttcttgctctaatgtttgttgttctcgagcacctatttcgctccatttcgtcaattaggtagaagtttaaccagaggcatgaactaaccttgttaaccttttcgtgagcag
  | |||||||| ||  || | || ||||||||||||||||| ||||| || || || ||| || | || ||||||||| | |||||||| || ||||||||   | |      | ||||     ||||  | |  | |     || | || |                                                                                    
ACTCGTGAGGCAAGCTGCTTCTAAAACCAACGATTTGGCTGGGGATGGAACGACGACTTCCTTGATCCTGGCACAAGGATTGATTGCCGAAGGCGTCAAGgttttt-tctcgtttttctgt---tcttccagattcattaagccttctgcttggctgtag-----------------------------------------------------------------------------

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|162182315|gb|FC357186.1|FC357186
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162250146|gb|FC427871.1|FC427871
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162153515|gb|FC329609.1|FC329609
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162150983|gb|FC327879.1|FC327879
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162183969|gb|FC359339.1|FC359339
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|208364523|gb|DC930913.1|DC930913
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGANGGTGTCAAG                         GTTGTCGCANCAGNAGCCAACCCAGTTC
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTC
EST: gi|162155281|gb|FC331218.1|FC331218
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162166168|gb|FC343411.1|FC343411
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|67507453|gb|BJ940335.1|BJ940335
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAAGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162153382|gb|FC329892.1|FC329892
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162175371|gb|FC352297.1|FC352297
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162171512|gb|FC347814.1|FC347814
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162157139|gb|FC333709.1|FC333709
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162180842|gb|FC358343.1|FC358343
EST:     CCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162173824|gb|FC349416.1|FC349416
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162256596|gb|FC432906.1|FC432906
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|67574539|gb|BJ947363.1|BJ947363
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162150359|gb|FC326631.1|FC326631
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162255427|gb|FC431841.1|FC431841
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
EST: gi|162154271|gb|FC330402.1|FC330402
EST:     CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAG                         GTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA
genomic: CCACTACCTCCGTGGTGCTTGCACAAGGACTCATTGCCGAGGGTGTCAAGgtagctgtag ... tcgtgagcagGTTGTCGCAGCAGGAGCCAACCCAGTTCAAATTACCAGGGGCATTGACAGA