Typing tool
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Typing tool
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Complete norovirus genomes
| MH791993 | GII.6 | |
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| GII.P7 |
ORF1: 1..4977
ORF2: 4958..6601
ORF3: 6601..7363
LOCUS MH791993 7363 bp RNA linear VRL 22-SEP-2018
DEFINITION Norovirus GII isolate ST368 nonstructural polyprotein (ORF1) gene,
partial cds; VP1 (ORF2) gene, complete cds; and VP2 (ORF3) gene,
partial cds.
ACCESSION MH791993
VERSION MH791993.1
DBLINK BioProject: PRJNA338014
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7363)
AUTHORS Casto,A.M., Adler,A., Huang,M.-L., Makhsous,N., Xie,H., Zerr,D. and
Greninger,A.
TITLE The limits of epidemiology: Real-time metagenomic sequencing during
norovirus outbreak reveals discrete transmission clusters and
elucidates long-term sequelae of hospital acquired infections
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7363)
AUTHORS Casto,A.M., Adler,A., Huang,M.-L., Makhsous,N., Xie,H., Zerr,D. and
Greninger,A.
TITLE Direct Submission
JOURNAL Submitted (22-AUG-2018) Department of Laboratory Medicine,
University of Washington, 1100 Fairview Ave. N, E5-110, PO Box
19024, Seattle, WA 98109, USA
FEATURES Location/Qualifiers
source 1..7363
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="ST368"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="2017"
/note="genotype: GII"
gene <1..4977
/gene="ORF1"
CDS <1..4977
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AXZ78437.1"
/translation="VGFKKMLGAVPKGTKAPSSDQHCPSVKIGTKTLTVPPEPPNGED
AVQFDAKSETVRGLPDLTTVQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEF
YHYSVYVSGGKALGVHKPPAAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEK
FPYTAFSNNCYNFCCWVLELNDTWLSRKSISRTTGFFKPYQSWNRKPLPTVDDGKIKK
VANAILCALGSLFSKPIKDLLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFGIFW
TPPDVSSFIASLIGDFELQGPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTL
RACKDLGNYALDILKLVMKWFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKD
KDSLTAFMKILDLEEEKARKLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSR
IRPVVVMISGRPGIGKTHMARHLAKSVANTMSGDQRVGLVPRNGVDHWDAYRGERVVL
WDDYGMGNPVKDALTLQELADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDY
VNFEACSRRVDFLVYAESPEIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDK
NGNTPHGKGTMRSLTQGSLTARVAGLVHERRDEFQLQGNDLQTYNFDANRVSAFRKLA
ADNKYGIMETMRVGTALKGVKTLEDLKVALRDVKFSECEIIYRNSKYRVSSNGKGSVS
VDKVEDQTSQTANEVGAAILRLRQARARYYVSCFQDLVYTLIQVAGASFVVNRISKRF
CWERWVKPTETQETSESEKEVARGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGL
SDEEYDEFKRIREERNGKYSIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIF
RPTKKQRKEERGVLGLVTGTDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSV
WSRIVPLGTGWGFWVSSNLLITTTHVLPKGINELFGVEIKQIQIHKSGEFCRFRFPRP
IRPDVTGLVLEEGAPEGTVCSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGML
LTGANAKNMDLGTGPGDCGCPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAV
LEGNENLGTYCGAPILGPGKAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKG
PSLQQVMRDQLKPFTEPRGKPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLD
KTTSSGSPHHVRKNDHWNGESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKT
DKIYKKIKKRLLWGSDLGTMIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFD
KHSKYRYHYDADYSRWDSTQQRNILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVG
DFVISVQEGLPSGVPCTSQWNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEI
VSTDINLDPMKLTQKLREYGLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFG
KLDQDSILRQLYWTRGPNHENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMV
ISEIKSGGLEFYVPRQEAMFRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
gene 4958..6601
/gene="ORF2"
CDS 4958..6601
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="AXZ78435.1"
/translation="MKMASNDAAPSNDGAANLVPEATNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLGHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEAIVVQPQNGRCTLDGTLQGTTQ
LVPTQICSFRGTLISQTSRSADSTDSAPRVRNHPLHVQLKNLDGTPYDPTDEVPAVLG
AIDFKGTVFGIASQRNTTGSSIGATRAHEVHIDTTNPRYTPKLGSVLMYSESNDFDDG
QPTRFTPIGMGADDWRQWELPEYSGHLTLNMNLAPAVAPAFPGERILFFRSVVPSAGG
YGSGHIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRVQ"
gene 6601..>7363
/gene="ORF3"
CDS 6601..>7363
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="AXZ78436.1"
/translation="MAGAFLAGLAGDAITSGVGSLINAGANAINQKVEYDFNKQLQLA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLSAGGFSPTDAARGAVNAPMTKILDWNG
TRYFAPNSMKTTSYSGQFSSNPMHRQPTLPRSAPPKIKANSDSASVYSSASTAPSQST
HSTALTVGSGSSRTTSSSAVASTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSKA
SSYGSVSTVPKAVLDSWTPMFNTHRQPLFAHVRRRG"
ORIGIN
1 gttggtttta agaaaatgct gggtgccgtt cccaagggga ccaaagcacc cagtagtgat
61 cagcactgcc cctcagttaa gatcgggacc aagacattaa cagttccccc tgagccccca
121 aatggtgagg acgccgtgca gtttgatgcg aagtcggaaa ctgtgcgcgg gttgccagac
181 ttgacaacgg tgcagaatga acacgaaaac acaccataca ctgtcccccc actgagtgaa
241 agggagcaca gaccagctac tgaaccgctt cctggcacaa tactggagat gtgggatggt
301 gaattctacc attactctgt gtacgtcagc ggtggcaaag ccctaggggt tcacaaaccc
361 cctgcagcga taagcctcgc gacgatagag ctcacaccca tatctcttta ttggaggccc
421 gtttacaccc ccaactatct ggtctgccca gacacgttga agggccttgc tggtgagaag
481 ttcccctaca cggccttcag caacaactgt tacaacttct gttgctgggt gcttgagctc
541 aatgacacgt ggcttagcag gaaaagcatc tctaggacca ccggcttctt caaaccatac
601 cagtcttgga ataggaaacc ccttccaacc gttgatgatg gaaagatcaa aaaggtggcc
661 aacgcaattc tctgtgcact cggatcactg ttttcaaaac caatcaagga cctattgggc
721 aaacttaaac cattgaactt gctgcacttg ctcgcatcat gtgactggac gtttgcgggc
781 atagtagaga cagtcatcct aatggcggaa ctcttcggca tcttttggac accgccagat
841 gtttccagct tcatagcctc cctgataggt gattttgaat tgcaagggcc tgaggacctg
901 gctgtggagc ttgtgcccgt ggtcatgggt ggcataggaa tggttctcgg ctttactgct
961 gagaagatag gccgcatgct gtcgtctgct gcatcaacac tgcgggcgtg caaagacttg
1021 gggaattatg ctcttgacat attgaaactg gttatgaagt ggttcttccc aaagaaagaa
1081 gagaaagccg agatggaaac cctgagggcg attgaggatg ccgtcctgga catggaagct
1141 ataggaaata accatctcac gaccctcctc aaggacaagg atagcctcac ggctttcatg
1201 aagattttag acctagaaga agagaaggca aggaagctgt ccaccaagtc atcctcgcca
1261 gacattgtcg gcaccattaa tgccatactg gctagaatag ctgctgccag gtccctcttg
1321 cacaaggcta aagaagaaat gttcagcagg atcagacccg tggttgtcat gatctcgggt
1381 agacctggta ttggcaaaac ccacatggca agacacctgg ccaagagtgt cgccaacacc
1441 atgagcggcg accagagagt ggggctcgtc ccacgcaacg gggttgatca ttgggatgcc
1501 tacaggggag agagggtggt tttatgggat gactatggca tgggaaaccc tgtcaaagat
1561 gccctaacgt tgcaagagct ggccgacacc tgcccagtaa ctctaaactg tgataggatt
1621 gagaacaagg ggaagatgtt tgacagtgat gtcatcataa tcacgaccaa tttagtcaac
1681 ccagcgcccc tcgattatgt aaacttcgag gcgtgctcca gaagggttga ctttctggtc
1741 tatgcagagt caccagaaat tgagaaggtt aagagagact ttcccggcca acctgacatg
1801 tggaaggacc attttaagcc agacttttcc cacataaaac tgactctagc cccacaaggt
1861 gggtttgaca agaatggcaa caccccgcat ggtaagggca ccatgcgatc cctaacccag
1921 gggtccctga ctgcaagggt tgcaggtctt gttcatgaga ggagagacga gtttcagctc
1981 caggggaacg accttcaaac atataacttt gatgccaaca gagtctctgc atttaggaag
2041 ctggccgcag acaacaagta tgggatcatg gagactatga gagtgggcac agcgcttaag
2101 ggtgtcaaga ccttggagga tctgaaagtt gcactgaggg acgtgaagtt cagtgagtgt
2161 gagataattt acagaaactc taaataccga gtctcttcca atggtaaagg ttctgtctct
2221 gttgacaaag ttgaggacca gacatcccag accgcaaacg aagtgggtgc agcaatcctt
2281 aggctcagac aggcaagagc cagatactat gtcagctgct tccaagacct cgtttacact
2341 ctaatacagg tcgccggagc atcattcgtt gtcaacagga tctctaaaag gttctgctgg
2401 gagagatggg tcaaaccaac cgagacccag gaaacgagtg agtccgaaaa ggaagttgcc
2461 cgaggcagat gggagattga gcccaaggac acagaaccag aaggtaagaa gggtaagaac
2521 aagaaaggaa gaggcaagaa acacacagct ttctccagta aaggcttgag tgatgaggag
2581 tatgacgagt tcaagagaat cagagaagaa aggaacggaa aatactccat tgaggaatac
2641 ctgcaagacc gggatcgcta ctatgaggaa gtggcagttg cccgggcgac agaggaggac
2701 ttctgtgaag aggaggaggc caagataaga caaagaatct ttcgccccac aaagaaacag
2761 aggaaggaag aaaggggggt gcttggtttg gttactggca cagacatcag gaagagaaga
2821 ccagacgatt ttcaaccgaa aggcaacctg tgggcagacg acactaggag cgtggactac
2881 aacgagagac ttgatttcga ggctcccccg agtgtctggt caagaatagt cccattgggc
2941 actggctggg gcttctgggt ctcatcaaac ctcctgatca caacaacgca cgtcctacct
3001 aaggggatta atgagctctt tggagttgag atcaaacaga ttcagatcca taagtctgga
3061 gagttctgca ggttcagatt tccaagacca attagaccag atgtcacagg gctcgtgttg
3121 gaggaaggcg ctccagaagg cactgtctgc tccatactcg taaagagacc tacaggtgag
3181 atgatccccc tggcagtgag gatgggcacg catgcatcca tgaaaataca gggtaggacc
3241 gttggtggcc agatgggaat gctcctcaca ggggcaaatg cgaagaacat ggatcttggc
3301 accggtcctg gtgactgcgg ttgcccttac atctacaaac gcggcaatga tatagttgtc
3361 gcgggtgtcc acaccgcagc agcccgggga ggcaacactg tcatatgtgc cactcaaggg
3421 caagatgggg aagcagtcct tgagggaaat gagaaccttg gcacttactg cggtgctcca
3481 atcctgggtc caggcaaggc gcccaaactc agcacgaaga ccaagttctg gcgttcatca
3541 ccagacgctt tgccaccagg cacttatgag cctgcctact tggggggtaa ggaccctaga
3601 gtggaaaaag gaccatccct gcagcaagtc atgagggacc agctaaaacc tttcacagag
3661 cccaggggca agccacctag acctgcagtc ttagaagaag ctaaaaagac agtgatgaat
3721 gttctagagc aaaccattga tcctgctaaa ccgtggacct attcccaagc atgtgcctca
3781 ctggacaaga ccacttccag tggtagcccc catcatgtca ggaaaaatga ccattggaat
3841 ggggaatcct tcactggccc cctcgcagac caagcatcca aagccaacct catgtacgag
3901 caggctaaac atgtgcagcc tgtgtacacg gccgcactca aagatgaact agtcaaaact
3961 gataagatct acaagaagat aaagaaaagg ctcttatggg ggtcggatct tggtacaatg
4021 atcaggtgtg ccagggcctt tggcggtctc atggatagca tgaaggcaag ctgcatagcc
4081 ctcccgtgta gggtaggaat gaacatgaat gaagatggcc ccatcatatt tgacaaacat
4141 tctaagtata ggtaccatta tgatgctgat tattccaggt gggactcaac ccagcaaagg
4201 aacattctct cggccgctat ggaagtgatg gtgcggttct ctgctgaacc agagctggca
4261 caagtggttg cagaggacct cctggcaccc agccaactag atgttggcga tttcgttatc
4321 tcagtccagg agggcctgcc atcaggggtc ccatgcacat cacaatggaa ttcaatagca
4381 cactggatcc taaccttgag cgcaatggca gaagtatcgg gtctctcacc agatgttgtt
4441 caagcccact cctgtttctc attctatggt gatgatgaga tcgtcagcac tgacatcaac
4501 cttgacccca tgaagttgac acagaagctc agagagtatg gtctggtccc cactcgacct
4561 gacaaaactg agggtcccct cgtaataact gaagatctca ccggcctaac gttcctgcgt
4621 aggtcaattg cacgggaccc agctgggtgg tttggaaaat tggaccaaga ctcaatcctc
4681 agacagttgt actggacaag aggccccaac catgagaacc catatgagag catggtccct
4741 cattcccagc gggccacaca actcatggcc ctcctcggtg aggcttcact gcatggtcct
4801 cagttttaca agaaagttag caagatggtt attagtgaga tcaaaagtgg tggtctggaa
4861 ttctatgtac ccagacaaga ggccatgttc agatggatga gattctctga cctcagcaca
4921 tgggagggcg atcgcaatct tgctcccgag ggtgtgaatg aagatggcgt cgaatgacgc
4981 tgctccatcg aatgatggtg ctgccaacct cgtaccagag gccaccaatg aggttatggc
5041 acttgagccg gtggtgggag cctcaattgc tgctcctgtc gtcggccaac aaaatataat
5101 tgacccctgg attagagaaa attttgttca ggcaccacag ggtgagttta ctgtttcacc
5161 aaggaactca ccaggtgaga tgcttctaaa tcttgaatta ggccctgagc tcaaccctta
5221 tctgggtcat ttgtcccgca tgtacaatgg ctatgctggt ggtatgcagg ttcaggtggt
5281 cctagctggg aatgcgttca cagctggtaa aatcatcttt gccgccgtcc caccacattt
5341 ccctgttgag aacattagtg cagcccaaat tacaatgtgc ccccatgtaa ttgttgatgt
5401 aagacagctt gagccagtgc ttttgcccct ccctgacata aggaatagat tctttcatta
5461 taatcaggaa aatacccccc ggatgagact tgtggctatg ttgtatacac cccttagagc
5521 aaattctggt gaggatgtgt ttacggtgtc ttgcagagtt ctgacccgcc ctgcccccga
5581 ctttgagttc acgtttttgg tgccaccaac cgtggagtca aagactaaac cctttacact
5641 tcctattctg actcttggag agctgtccaa ctctagattc cccgctccga tagatatgtt
5701 gtacactgac cccaatgagg caattgtggt gcaaccacaa aatggcaggt gcactctaga
5761 tggaacactt caggggacca cccaactggt gcccacccaa atttgctcct tcaggggcac
5821 gctaattagt cagacgtcga ggtctgcaga ctcaactgat tcagccccac gggtgaggaa
5881 ccaccctctc cacgttcagc tgaagaacct cgatgggaca ccatatgacc caacagatga
5941 ggtgccagca gttttgggtg ccatagattt caaaggaact gtgtttggga tcgctagcca
6001 aagaaacacc acagggagct ctataggagc gacccgcgcc catgaagtgc acatagacac
6061 cacaaaccct agatacaccc caaagcttgg ctctgtgttg atgtattctg aatcaaatga
6121 ttttgatgat ggacaaccta cccgctttac ccccattggc atgggagccg atgattggcg
6181 ccaatgggaa ttgcccgaat attctggtca cctcactctt aacatgaatt tggcccccgc
6241 agttgcccct gcttttcctg gtgagcgcat tctcttcttc aggtcagtgg tgccatctgc
6301 tggtggctat ggatcaggtc acatagattg cctcatccca caggagtggg ttcagcattt
6361 ctatcaggag gccgctccat cacaatccgc ggtggctctc atcagatatg tcaaccctga
6421 cactggaaga aacatctttg aggcaaaact gcatagagaa gggttcatca ctgtggcaaa
6481 ttctggaaac aatcccatag ttgtgccccc aaatggctac ttcaggtttg aggcctgggt
6541 caatcaattc tacacactca cccccatggg aactggacag gggcgcagaa gagttcaata
6601 atggcaggag ctttcttagc tggattagca ggtgacgcca taacaagtgg tgtcgggtcc
6661 ctaattaatg ctggggccaa tgcaattaac caaaaggtag aatatgactt taataaacag
6721 ctccaattgg catccttcaa acatgataaa gagatgttgc agtcacaagt actggccact
6781 aaacagctcc agcaggagat gatgaacata aggcaagggg tcttgtccgc tggcggcttt
6841 tcccctacag atgccgcgag aggtgctgtg aacgcgccga tgacaaaaat tttggattgg
6901 aatggaacaa ggtactttgc cccaaatagt atgaaaacaa ccagttattc gggccagttt
6961 tccagcaacc ctatgcatag gcaacccact ttaccccgtt ctgcaccccc aaaaattaag
7021 gctaatagtg attctgctag tgtgtatagt tctgcatcta ctgctccttc acaatcaact
7081 cactcaacgg ctctgactgt ggggtctggc tcatctagga caacatcctc ttctgcagta
7141 gcttccaccc tatctaggac tagtgactgg gtgagaggac aaaatgaaag gcttagcccg
7201 ttcatggatg gtgctctcca aacaactttt gtcacaccac catcgagcaa agcttcatca
7261 tatgggtcgg tctcaaccgt tcccaaagct gttttggact cctggactcc tatgttcaat
7321 acccacaggc agcctctctt cgctcatgtg cgcaggcgag ggg
//