PMC:7067204 / 20675-21603
Annnotations
{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/7067204","sourcedb":"PMC","sourceid":"7067204","source_url":"https://www.ncbi.nlm.nih.gov/pmc/7067204","text":"Figure 5. Analysis of orf8 to show novel putative protein. (A) Phylogenetic analysis of orf8 amino acid sequences of 2019-nCoV HKU-SZ-005b (accession number MN975262), bat SARS-like coronavirus isolates bat-SL-CoVZXC21 and bat-SL-CoVZXC45 (accession number MG772934.1 and MG772933.1, respectively) and human SARS coronavirus (accession number AY274119) was performed using the neighbour-joining method with bootstrap 1000. The evolutionary distances were calculated using the JTT matrix-based method. (B) Multiple alignment was performed and displayed using CLUSTAL 2.1 and BOXSHADE 3.21, respectively. The black background represents the identity while the grey background represents the similarity of the amino acid sequences. (C) Structural analysis of Orf8 was performed using PSI-blast-based secondary structure PREDiction (PSIPRED). Predicted helix structure (h) and strand (s) were boxed with red and yellow respectively.","divisions":[{"label":"label","span":{"begin":0,"end":9}}],"tracks":[{"project":"LitCovid-PubTator","denotations":[{"id":"1043","span":{"begin":223,"end":226},"obj":"Gene"},{"id":"1044","span":{"begin":703,"end":706},"obj":"Gene"},{"id":"1045","span":{"begin":685,"end":688},"obj":"Gene"},{"id":"1046","span":{"begin":654,"end":657},"obj":"Gene"},{"id":"1047","span":{"begin":635,"end":638},"obj":"Gene"},{"id":"1048","span":{"begin":603,"end":606},"obj":"Gene"},{"id":"1049","span":{"begin":472,"end":475},"obj":"Gene"},{"id":"1050","span":{"begin":423,"end":426},"obj":"Gene"},{"id":"1051","span":{"begin":373,"end":376},"obj":"Gene"},{"id":"1052","span":{"begin":27,"end":29},"obj":"Gene"},{"id":"1053","span":{"begin":756,"end":760},"obj":"Gene"},{"id":"1054","span":{"begin":88,"end":92},"obj":"Gene"},{"id":"1055","span":{"begin":22,"end":26},"obj":"Gene"},{"id":"1056","span":{"begin":753,"end":755},"obj":"Gene"},{"id":"1057","span":{"begin":700,"end":702},"obj":"Gene"},{"id":"1058","span":{"begin":114,"end":116},"obj":"Gene"},{"id":"1059","span":{"begin":85,"end":87},"obj":"Gene"},{"id":"1060","span":{"begin":19,"end":21},"obj":"Gene"},{"id":"1061","span":{"begin":117,"end":126},"obj":"Species"},{"id":"1062","span":{"begin":168,"end":193},"obj":"Species"},{"id":"1063","span":{"begin":308,"end":324},"obj":"Species"},{"id":"1064","span":{"begin":203,"end":206},"obj":"Gene"},{"id":"1065","span":{"begin":157,"end":165},"obj":"CellLine"}],"attributes":[{"id":"A1043","pred":"tao:has_database_id","subj":"1043","obj":"Gene:570"},{"id":"A1044","pred":"tao:has_database_id","subj":"1044","obj":"Gene:25085"},{"id":"A1045","pred":"tao:has_database_id","subj":"1045","obj":"Gene:25085"},{"id":"A1046","pred":"tao:has_database_id","subj":"1046","obj":"Gene:25085"},{"id":"A1047","pred":"tao:has_database_id","subj":"1047","obj":"Gene:25085"},{"id":"A1048","pred":"tao:has_database_id","subj":"1048","obj":"Gene:25085"},{"id":"A1049","pred":"tao:has_database_id","subj":"1049","obj":"Gene:25085"},{"id":"A1050","pred":"tao:has_database_id","subj":"1050","obj":"Gene:25085"},{"id":"A1051","pred":"tao:has_database_id","subj":"1051","obj":"Gene:25085"},{"id":"A1052","pred":"tao:has_database_id","subj":"1052","obj":"Gene:6999"},{"id":"A1053","pred":"tao:has_database_id","subj":"1053","obj":"Gene:43740577"},{"id":"A1054","pred":"tao:has_database_id","subj":"1054","obj":"Gene:43740577"},{"id":"A1055","pred":"tao:has_database_id","subj":"1055","obj":"Gene:43740577"},{"id":"A1056","pred":"tao:has_database_id","subj":"1056","obj":"Gene:6688"},{"id":"A1057","pred":"tao:has_database_id","subj":"1057","obj":"Gene:6688"},{"id":"A1058","pred":"tao:has_database_id","subj":"1058","obj":"Gene:6688"},{"id":"A1059","pred":"tao:has_database_id","subj":"1059","obj":"Gene:6688"},{"id":"A1060","pred":"tao:has_database_id","subj":"1060","obj":"Gene:6688"},{"id":"A1061","pred":"tao:has_database_id","subj":"1061","obj":"Tax:2697049"},{"id":"A1062","pred":"tao:has_database_id","subj":"1062","obj":"Tax:1508227"},{"id":"A1063","pred":"tao:has_database_id","subj":"1063","obj":"Tax:694009"},{"id":"A1064","pred":"tao:has_database_id","subj":"1064","obj":"Gene:570"},{"id":"A1065","pred":"tao:has_database_id","subj":"1065","obj":"CVCL:U508"},{"subj":"1043","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1044","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1045","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1046","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1047","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1048","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1049","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1050","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1051","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1052","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1053","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1054","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1055","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1056","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1057","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1058","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1059","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1060","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1061","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1062","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1063","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1064","pred":"source","obj":"LitCovid-PubTator"},{"subj":"1065","pred":"source","obj":"LitCovid-PubTator"}],"namespaces":[{"prefix":"Tax","uri":"https://www.ncbi.nlm.nih.gov/taxonomy/"},{"prefix":"MESH","uri":"https://id.nlm.nih.gov/mesh/"},{"prefix":"Gene","uri":"https://www.ncbi.nlm.nih.gov/gene/"},{"prefix":"CVCL","uri":"https://web.expasy.org/cellosaurus/CVCL_"}]},{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T99","span":{"begin":50,"end":57},"obj":"Body_part"},{"id":"T100","span":{"begin":93,"end":103},"obj":"Body_part"},{"id":"T101","span":{"begin":707,"end":717},"obj":"Body_part"},{"id":"T102","span":{"begin":849,"end":854},"obj":"Body_part"}],"attributes":[{"id":"A99","pred":"fma_id","subj":"T99","obj":"http://purl.org/sig/ont/fma/fma67257"},{"id":"A100","pred":"fma_id","subj":"T100","obj":"http://purl.org/sig/ont/fma/fma82739"},{"id":"A101","pred":"fma_id","subj":"T101","obj":"http://purl.org/sig/ont/fma/fma82739"},{"id":"A102","pred":"fma_id","subj":"T102","obj":"http://purl.org/sig/ont/fma/fma60992"},{"subj":"T99","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T100","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T101","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T102","pred":"source","obj":"LitCovid-PD-FMA-UBERON"}]},{"project":"LitCovid-PD-UBERON","denotations":[{"id":"T18","span":{"begin":849,"end":854},"obj":"Body_part"}],"attributes":[{"id":"A18","pred":"uberon_id","subj":"T18","obj":"http://purl.obolibrary.org/obo/UBERON_0002488"},{"subj":"T18","pred":"source","obj":"LitCovid-PD-UBERON"}]},{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T105","span":{"begin":172,"end":176},"obj":"Disease"},{"id":"T106","span":{"begin":308,"end":312},"obj":"Disease"}],"attributes":[{"id":"A105","pred":"mondo_id","subj":"T105","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A106","pred":"mondo_id","subj":"T106","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"subj":"T105","pred":"source","obj":"LitCovid-PD-MONDO"},{"subj":"T106","pred":"source","obj":"LitCovid-PD-MONDO"}]},{"project":"LitCovid-PD-CLO","denotations":[{"id":"T247","span":{"begin":60,"end":61},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T248","span":{"begin":168,"end":171},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_9397"},{"id":"T249","span":{"begin":203,"end":206},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_9397"},{"id":"T250","span":{"begin":223,"end":226},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_9397"},{"id":"T251","span":{"begin":302,"end":307},"obj":"http://purl.obolibrary.org/obo/NCBITaxon_9606"},{"id":"T252","span":{"begin":502,"end":503},"obj":"http://purl.obolibrary.org/obo/CLO_0001021"}],"attributes":[{"subj":"T247","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T248","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T249","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T250","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T251","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T252","pred":"source","obj":"LitCovid-PD-CLO"}]},{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T136","span":{"begin":50,"end":57},"obj":"Chemical"},{"id":"T137","span":{"begin":93,"end":103},"obj":"Chemical"},{"id":"T138","span":{"begin":93,"end":98},"obj":"Chemical"},{"id":"T139","span":{"begin":99,"end":103},"obj":"Chemical"},{"id":"T140","span":{"begin":207,"end":209},"obj":"Chemical"},{"id":"T141","span":{"begin":227,"end":229},"obj":"Chemical"},{"id":"T142","span":{"begin":707,"end":717},"obj":"Chemical"},{"id":"T143","span":{"begin":707,"end":712},"obj":"Chemical"},{"id":"T144","span":{"begin":713,"end":717},"obj":"Chemical"}],"attributes":[{"id":"A136","pred":"chebi_id","subj":"T136","obj":"http://purl.obolibrary.org/obo/CHEBI_36080"},{"id":"A137","pred":"chebi_id","subj":"T137","obj":"http://purl.obolibrary.org/obo/CHEBI_33709"},{"id":"A138","pred":"chebi_id","subj":"T138","obj":"http://purl.obolibrary.org/obo/CHEBI_46882"},{"id":"A139","pred":"chebi_id","subj":"T139","obj":"http://purl.obolibrary.org/obo/CHEBI_37527"},{"id":"A140","pred":"chebi_id","subj":"T140","obj":"http://purl.obolibrary.org/obo/CHEBI_74815"},{"id":"A141","pred":"chebi_id","subj":"T141","obj":"http://purl.obolibrary.org/obo/CHEBI_74815"},{"id":"A142","pred":"chebi_id","subj":"T142","obj":"http://purl.obolibrary.org/obo/CHEBI_33709"},{"id":"A143","pred":"chebi_id","subj":"T143","obj":"http://purl.obolibrary.org/obo/CHEBI_46882"},{"id":"A144","pred":"chebi_id","subj":"T144","obj":"http://purl.obolibrary.org/obo/CHEBI_37527"},{"subj":"T136","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T137","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T138","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T139","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T140","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T141","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T142","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T143","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T144","pred":"source","obj":"LitCovid-PD-CHEBI"}]},{"project":"LitCovid-sentences","denotations":[{"id":"T208","span":{"begin":0,"end":9},"obj":"Sentence"},{"id":"T209","span":{"begin":10,"end":422},"obj":"Sentence"},{"id":"T210","span":{"begin":423,"end":602},"obj":"Sentence"},{"id":"T211","span":{"begin":603,"end":838},"obj":"Sentence"},{"id":"T212","span":{"begin":839,"end":928},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"attributes":[{"subj":"T208","pred":"source","obj":"LitCovid-sentences"},{"subj":"T209","pred":"source","obj":"LitCovid-sentences"},{"subj":"T210","pred":"source","obj":"LitCovid-sentences"},{"subj":"T211","pred":"source","obj":"LitCovid-sentences"},{"subj":"T212","pred":"source","obj":"LitCovid-sentences"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"LitCovid-PubTator","color":"#b6ec93","default":true},{"id":"LitCovid-PD-FMA-UBERON","color":"#ec93d0"},{"id":"LitCovid-PD-UBERON","color":"#93eaec"},{"id":"LitCovid-PD-MONDO","color":"#ecd493"},{"id":"LitCovid-PD-CLO","color":"#ba93ec"},{"id":"LitCovid-PD-CHEBI","color":"#93eca0"},{"id":"LitCovid-sentences","color":"#ec93a0"}]}]}}