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ncbi-virus-all-fields-example.json
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ncbi-virus-all-fields-example.json
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{
"ExportDate_dt": "2020-12-24T19:04:30.895Z",
"QualNum_i": 0,
"IncompleteCdsCnt_i": 0,
"gi_i": 1798174254,
"Host_s": "Homo sapiens",
"HostSpecies_s": "Homo sapiens (human), taxid:9606| man",
"HostLineage_ss": [
"cellular organisms, taxid:131567| biota",
"Eukaryota (eucaryotes), taxid:2759| eukaryotes Eucarya Eucaryotae Eukarya Eukaryotae",
"Opisthokonta, taxid:33154| Fungi/Metazoa group opisthokonts",
"Metazoa (metazoans), taxid:33208| multicellular animals Animalia animals",
"Eumetazoa, taxid:6072|",
"Bilateria, taxid:33213|",
"Deuterostomia (deuterostomes), taxid:33511|",
"Chordata (chordates), taxid:7711|",
"Craniata, taxid:89593|",
"Vertebrata (vertebrates), taxid:7742|",
"Gnathostomata (jawed vertebrates), taxid:7776|",
"Teleostomi, taxid:117570|",
"Euteleostomi (bony vertebrates), taxid:117571|",
"Sarcopterygii, taxid:8287|",
"Dipnotetrapodomorpha, taxid:1338369|",
"Tetrapoda (tetrapods), taxid:32523|",
"Amniota (amniotes), taxid:32524|",
"Mammalia (mammals), taxid:40674|",
"Theria, taxid:32525|",
"Eutheria (placentals), taxid:9347| eutherian mammals placental mammals Placentalia",
"Boreoeutheria, taxid:1437010| Boreotheria",
"Euarchontoglires, taxid:314146|",
"Primates, taxid:9443| Primata primates",
"Haplorrhini, taxid:376913|",
"Simiiformes, taxid:314293| Anthropoidea",
"Catarrhini, taxid:9526|",
"Hominoidea (apes), taxid:314295| ape",
"Hominidae (great apes), taxid:9604| Pongidae",
"Homininae, taxid:207598| Homo/Pan/Gorilla group",
"Homo (humans), taxid:9605|",
"Homo sapiens (human), taxid:9606| man"
],
"HostLineageId_ss": [
"131567",
"2759",
"33154",
"33208",
"6072",
"33213",
"33511",
"7711",
"89593",
"7742",
"7776",
"117570",
"117571",
"8287",
"1338369",
"32523",
"32524",
"40674",
"32525",
"9347",
"1437010",
"314146",
"9443",
"376913",
"314293",
"9526",
"314295",
"9604",
"207598",
"9605",
"9606"
],
"Locus_s": "NC_045512",
"OrgId_i": 2697049,
"VirusFamily_s": "Coronaviridae",
"VirusGenus_s": "Betacoronavirus",
"VirusSpecies_s": "Severe acute respiratory syndrome-related coronavirus",
"VirusSpeciesId_i": 694009,
"VirusLineage_ss": [
"Viruses, taxid:10239| Vira Viridae viruses",
"Riboviria (RNA viruses), taxid:2559587| RNA viruses and viroids",
"Orthornavirae, taxid:2732396|",
"Pisuviricota, taxid:2732408|",
"Pisoniviricetes, taxid:2732506|",
"Nidovirales, taxid:76804|",
"Cornidovirineae, taxid:2499399|",
"Coronaviridae, taxid:11118|",
"Orthocoronavirinae, taxid:2501931|",
"Betacoronavirus, taxid:694002| Coronavirus",
"Sarbecovirus, taxid:2509511|",
"Severe acute respiratory syndrome-related coronavirus, taxid:694009| HCoV-SARS SARS SARSr-CoV SARSrCoV",
"Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), taxid:2697049|",
"RNA viruses"
],
"VirusLineageId_ss": [
"10239",
"2559587",
"2732396",
"2732408",
"2732506",
"76804",
"2499399",
"11118",
"2501931",
"694002",
"2509511",
"694009",
"2697049"
],
"VirusL0_s": "RNA viruses",
"VirusL1_s": "Orthornavirae, taxid:2732396",
"VirusL2_s": "Pisuviricota, taxid:2732408",
"VirusL3_s": "Pisoniviricetes, taxid:2732506",
"VirusL4_s": "Nidovirales, taxid:76804",
"VirusL5_s": "Cornidovirineae, taxid:2499399",
"VirusL6_s": "Coronaviridae, taxid:11118",
"VirusL7_s": "Orthocoronavirinae, taxid:2501931",
"VirusL8_s": "Betacoronavirus, taxid:694002",
"VirusL9_s": "Sarbecovirus, taxid:2509511",
"VirusL10_s": "Severe acute respiratory syndrome-related coronavirus, taxid:694009",
"ViralHost_ss": [
"human",
"vertebrates"
],
"GenomicMoltype_s": "ssRNA(+)",
"SLen_i": 29903,
"Flags_ss": [
"refseq",
"complete"
],
"Flags_csv": "refseq, complete",
"FlagsCount_i": 2,
"SetAcc_s": "GCF_009858895.1",
"ids_ss": [
"GCF_009858895",
"GCF_009858895.1",
"NC_045512",
"NC_045512.2",
"PRJNA485481",
"YP_009724389",
"YP_009724390",
"YP_009724391",
"YP_009724392",
"YP_009724393",
"YP_009724394",
"YP_009724395",
"YP_009724396",
"YP_009724397",
"YP_009725255",
"YP_009725295",
"YP_009725318",
"set:NC_045512"
],
"idsCount_i": 14,
"Authors_ss": [
"Wu,F.",
"Zhao,S.",
"Yu,B.",
"Chen,Y.M.",
"Wang,W.",
"Song,Z.G.",
"Hu,Y.",
"Tao,Z.W.",
"Tian,J.H.",
"Pei,Y.Y.",
"Yuan,M.L.",
"Zhang,Y.L.",
"Dai,F.H.",
"Liu,Y.",
"Wang,Q.M.",
"Zheng,J.J.",
"Xu,L.",
"Holmes,E.C.",
"Zhang,Y.Z.",
"Baranov,P.V.",
"Henderson,C.M.",
"Anderson,C.B.",
"Gesteland,R.F.",
"Atkins,J.F.",
"Howard,M.T.",
"Robertson,M.P.",
"Igel,H.",
"Baertsch,R.",
"Haussler,D.",
"Ares,M. Jr.",
"Scott,W.G.",
"Williams,G.D.",
"Chang,R.Y.",
"Brian,D.A.",
"Chen,Y.-M.",
"Song,Z.-G.",
"Tao,Z.-W.",
"Tian,J.-H.",
"Pei,Y.-Y.",
"Zhang,Y.-L.",
"Dai,F.-H.",
"Wang,Q.-M.",
"Zheng,J.-J.",
"Zhang,Y.-Z."
],
"Authors_csv": "Wu,F., Zhao,S., Yu,B., Chen,Y.M., Wang,W., Song,Z.G., Hu,Y., Tao,Z.W., Tian,J.H., Pei,Y.Y., Yuan,M.L., Zhang,Y.L., Dai,F.H., Liu,Y., Wang,Q.M., Zheng,J.J., Xu,L., Holmes,E.C., Zhang,Y.Z., Baranov,P.V., Henderson,C.M., Anderson,C.B., Gesteland,R.F., Atkins,J.F., Howard,M.T., Robertson,M.P., Igel,H., Baertsch,R., Haussler,D., Ares,M. Jr., Scott,W.G., Williams,G.D., Chang,R.Y., Brian,D.A., Chen,Y.-M., Song,Z.-G., Tao,Z.-W., Tian,J.-H., Pei,Y.-Y., Zhang,Y.-L., Dai,F.-H., Wang,Q.-M., Zheng,J.-J., Zhang,Y.-Z.",
"AuthorsCount_i": 44,
"Country_s": "China",
"Isolate_s": "Wuhan-Hu-1",
"Division_s": "VRL",
"Keywords_ss": [
"RefSeq"
],
"KeywordsCount_i": 1,
"TaxName_s": "Severe acute respiratory syndrome coronavirus 2",
"Region_s": "Asia",
"ParentAcc_s": "set:NC_045512",
"SetPosition_i": 0,
"SourceDB_s": "RefSeq",
"Definition_s": "Severe acute respiratory syndrome coronavirus 2 isolate Wuhan-Hu-1, complete genome",
"HostId_i": 9606,
"CreateDate_dt": "2020-01-13T00:00:00Z",
"MolType_s": "RNA",
"ProtAcc_ss": [
"YP_009724389",
"YP_009725295",
"YP_009724390",
"YP_009724391",
"YP_009724392",
"YP_009724393",
"YP_009724394",
"YP_009724395",
"YP_009725318",
"YP_009724396",
"YP_009724397",
"YP_009725255"
],
"ProtAccCount_i": 12,
"UpdateDate_dt": "2020-07-18T00:00:00Z",
"PubMed_ss": [
"32015508",
"15680415",
"15630477",
"10482585"
],
"PubMed_csv": "32015508, 15680415, 15630477, 10482585",
"PubMedCount_i": 4,
"Completeness_s": "complete",
"CountryFull_s": "China",
"ProtNames_ss": [
"ORF1ab polyprotein",
"ORF1a polyprotein",
"surface glycoprotein",
"ORF3a protein",
"envelope protein",
"membrane glycoprotein",
"ORF6 protein",
"ORF7a protein",
"ORF7b protein",
"ORF8 protein",
"nucleocapsid phosphoprotein",
"ORF10 protein"
],
"ProtNamesCount_i": 12,
"NuclAcc_ss": [
"NC_045512"
],
"NuclAccCount_i": 1,
"CollectionDate_dr": "2019-12",
"BioProject_ss": [
"PRJNA485481"
],
"BioProject_csv": "PRJNA485481",
"BioProjectCount_i": 1,
"AccVer_s": "NC_045512.2",
"CollectionDate_s": "2019-12",
"GenomeCompleteness_s": "partial",
"BioProject_s": "PRJNA485481",
"id": "NC_045512",
"SeqType_s": "Nucleotide",
"FastaMD5_s": "4928f859a1822d291e0225206a0068c8",
"Genome_js": [
{
"id": "NC_045512.2",
"segment": null,
"proteins": [
{
"id": "YP_009724389.1",
"name": "ORF1ab polyprotein",
"location": "join(266..13468,13468..21555)"
},
{
"id": "YP_009725295.1",
"name": "ORF1a polyprotein",
"location": "266..13483"
},
{
"id": "YP_009724390.1",
"name": "surface glycoprotein",
"location": "21563..25384"
},
{
"id": "YP_009724391.1",
"name": "ORF3a protein",
"location": "25393..26220"
},
{
"id": "YP_009724392.1",
"name": "envelope protein",
"location": "26245..26472"
},
{
"id": "YP_009724393.1",
"name": "membrane glycoprotein",
"location": "26523..27191"
},
{
"id": "YP_009724394.1",
"name": "ORF6 protein",
"location": "27202..27387"
},
{
"id": "YP_009724395.1",
"name": "ORF7a protein",
"location": "27394..27759"
},
{
"id": "YP_009725318.1",
"name": "ORF7b",
"location": "27756..27887"
},
{
"id": "YP_009724396.1",
"name": "ORF8 protein",
"location": "27894..28259"
},
{
"id": "YP_009724397.2",
"name": "nucleocapsid phosphoprotein",
"location": "28274..29533"
},
{
"id": "YP_009725255.1",
"name": "ORF10 protein",
"location": "29558..29674"
}
]
}
]
}