Typing tool
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Typing tool
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Complete norovirus genomes
| MW305739 | GII.6 | |
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| GII.P6 |
ORF1: 1..5060
ORF2: 5041..6684
ORF3: 6684..7460
LOCUS MW305739 7509 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate HK28 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MW305739
VERSION MW305739.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7509)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Genome-wide analyses of human noroviruses reveal coexistence of
viral populations evolving under recombination constraints
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7509)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Direct Submission
JOURNAL Submitted (23-NOV-2020) CBER/OVRR/DVP/LHV, U.S. Food and Drug
Administration, 10903 New Hampshire Avenue, Silver Spring, MD
20993, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: High-performance Integrated Virtual
Environment (HIVE) v. 2
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7509
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="HK28"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Hong Kong"
/collection_date="1977"
/note="genotype: GII.6[GII.P6]"
gene <1..5060
/gene="ORF1"
CDS <1..5060
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59553.1"
/translation="FGSQNSVNDSTNTTPSKEEVGAFSNIKVGLKKMLGAVPKSTKAP
SDDQHCPTVKIGSKTLAIPPEPPNGEDVVQFDAKSETVRGLPDLTTVQNEHENTPYTV
PPLSEREHRPAAEPLPGTILEMWDGEFYHYSIYVSGGKALGVHKPPAAISLATIELTP
ISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLCRRSIS
RTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLLH
LLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQGPEDLAVELVPV
VMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAEM
ETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARRLSTKSSSPDIV
GTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKSIANTM
SGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPIKDALTLQELADTCPVTLNCDR
IENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRIDFLVYAESPEIEKVKRDFPGQ
PDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHERR
DEFQLQGDNLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKNVKTLEDLKVALR
DVKFNECEIIYRNTKYRVSSNGKGTVSVDKVEDLTSQTANEVSSALLRLRQARARYYV
SCFQDLVYTLIQVAGASFVVNRISQRFCWERWVKPTETQETSEPEKETAQGRWEIEPK
DTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGRYSIEEYLQDRDRY
YEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTGSDIRKRRPDDFQ
PKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKGI
KELFGVDVKQIQIHKSGEFCRFRFPRPIRPDVSGLVLEEGAPEGTVCSILVKRPTGEM
IPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDII
VAGVHTAAARGGNTVICATQGQDGEAVLEGNESLGTYCGAPILGPGKAPKLSTKTKFW
RSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPAVLEEAK
KTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHIRKNDHWNGESFTGPLADQAS
KANLMYEQAKHMQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMVRCARAFGGLM
DSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQRSILTAAMEV
MVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTLS
AMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPSKLTQKLREYGLVPTRPDKTEG
PLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPHSQ
RATQLMALLGEASLHGPQFYKKVSKMVISEIKSGGLEFYVPRQEAMFRWMRFSDLSTW
EGDRNLAPESVNEDGVE"
mat_peptide <1..968
/gene="ORF1"
/product="p48"
mat_peptide 969..2066
/gene="ORF1"
/product="NTPase"
mat_peptide 2067..2585
/gene="ORF1"
/product="p22"
mat_peptide 2586..2984
/gene="ORF1"
/product="VPg"
mat_peptide 2985..3527
/gene="ORF1"
/product="Pro"
mat_peptide 3528..5057
/gene="ORF1"
/product="RdRp"
gene 5041..6684
/gene="ORF2"
CDS 5041..6684
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59554.1"
/translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNETIVVQPQNGRCTLDGTLQGTTQ
LVPTQICSFRGTLISQTSRSAESTDSAPRVRNHPLHVQLKNLDGTPYDPTDEVPAVLG
AIDFKGTVFGVASQRNTTGSSAGATRAHEVHIDTTNPRYTPKLGSVLMYSESTDFDDG
QPTRFTPIGMGADDWRQWELPEYSGHLTLNMNLAPAVAPAFPGERILFFRSVVPSAGG
YGSGQIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRVQ"
gene 6684..7460
/gene="ORF3"
CDS 6684..7460
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59555.1"
/translation="MAGAFFAGLAGDAITNGVGSLISAGANAINQKVEYDFNKQLQLA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLTAGGFSPTDAARGAVNAPMTKILDWNG
TRYFAPNSMKTTSYSGQFSSNPVHRQPTLSRSDPPKVKVNSDSASVYSSASIAPSQST
HSTVLTAGSGSSRTTSSSTAASTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSKA
SSNGSVSTVPKAVLDSWTPMFNTHRQPLFAHVRRRGESQI"
ORIGIN
1 cctttggcag ccaaaactct gtcaatgaca gtaccaacac caccccttcc aaagaagagg
61 ttggtgcatt ctccaacatc aaagttggac ttaagaaaat gctgggtgcc gtgcctaaaa
121 gcaccaaggc acccagcgat gaccagcact gccccacagt taagatcggg tctaaaacac
181 tagcgatccc accagagccc ccaaacggtg aggatgttgt gcagtttgac gcaaaatcgg
241 aaactgtacg tgggctaccc gatctgacga cagtgcaaaa tgaacatgag aacaccccat
301 acacagtccc tccactgagt gaaagggaac atagaccagc cgctgagccg ctccctggca
361 caatactgga gatgtgggat ggtgaatttt accactactc catctatgtc agcggaggca
421 aagctctggg ggtgcacaaa cccccagcgg ctataagcct cgcgacaata gaactcactc
481 ccatatccct ttactggcgg cctgtctata ctccaaacta cctggtctgc ccagacacat
541 tgaagggtct tgctggtgag aagtttccct acacggcctt cagtaacaac tgctacaatt
601 tctgttgttg ggtgcttgag cttaatgaca cgtggctttg caggaggagc atttccagaa
661 ccactggctt ctttaagcca taccagtctt ggaacaggaa gcctctccct accgttgatg
721 atggaaaaat taaaaaggtg gccaatgcaa ttctctgtgc acttggctca ctgttttcaa
781 aaccaatcaa agatctattg ggcaaactca agccactgaa tctactacat ctgcttgcgt
841 cgtgtgactg gacgtttgcg ggtatagtag agacagtcat cttgatggcg gaactcttca
901 acgtcttctg gactccgcca gatgtctcca actttatagc ctccctgata ggtgattttg
961 agttacaagg gcccgaggac ttagctgtgg agcttgtccc cgtggttatg ggaggcatag
1021 gaatggtcct cggtttcact gccgagaaga ttggccgcat gttgtcatct gccgcatcaa
1081 ctctacgggc atgcaaagat ctggggaact acgccctcga catactaaag ctggtcatga
1141 agtggttctt cccaaagaaa gaagagaagg ccgagatgga gaccttaagg gcgatcgagg
1201 atgccgtctt agatatggag gcaataggga acaaccatct cacgacactc ctcaaggaca
1261 aggacagcct cactgcattc atgaagaccc tagacctaga agaggagaaa gcaagaaggc
1321 tgtcaacgaa gtcatcctcg ccagacattg tcggcaccat taacgccata ctggctagaa
1381 tagcagctgc tagatccctt ctacacaagg ccaaggaaga gatgtttagc agaattagac
1441 cagtggttgt catgatctca ggcagacctg gcattggtaa aacccatatg gcaaggcatc
1501 tggctaagag tatagccaac actatgagtg gagaccagag agttgggctt gtcccgcgca
1561 acggggttga ccattgggat gcctacaggg gggagagggt ggtcctgtgg gacgactatg
1621 gtatggggaa ccctatcaaa gatgccttaa cattgcaaga actggccgac acctgcccag
1681 tcaccctgaa ttgtgatagg attgagaaca aggggaaaat gtttgacagt gatgtcatca
1741 taatcacaac taatttggtc aaccctgcac ccctcgatta tgtgaacttc gaggcttgct
1801 ccagaagaat cgatttcctt gtctatgcag agtcaccaga aatagaaaag gtcaagagag
1861 acttccctgg tcagcctgac atgtggaaag accacttcaa accggacttc tcccacataa
1921 agttgacttt ggccccccag ggcgggtttg acaagaatgg caacacccca catggtaagg
1981 gcaccatgcg gtctctgacc caggggtccc tgactgcaag agttgcaggc cttgttcacg
2041 agaggagaga tgaattccag ctgcaagggg acaacctaca aacatacaac tttgacacca
2101 atagggtctc tgcgtttagg aaactagccg cagataacaa gtatggaatc atggagacaa
2161 tgagagtagg tgcggcactc aagaatgtca agactttgga agacctcaaa gttgccttga
2221 gagatgtgaa attcaatgaa tgtgagatca tctacaggaa caccaagtac cgggtttcat
2281 ccaatggcaa aggcacagtc tctgttgaca aagtcgagga cctcacttcc caaactgcaa
2341 acgaggtgag ctcagccctc cttaggctca gacaagcgag ggccagatac tacgtcagct
2401 gcttccagga ccttgtctac actctcatac aggttgctgg ggcttcattt gtcgtcaaca
2461 ggatctccca gaggttctgc tgggaaaggt gggttaaacc aaccgagact caggagacga
2521 gtgagcccga aaaggaaact gcccagggta gatgggagat tgaacccaag gacacagaac
2581 cagaaggtaa gaagggcaaa aacaagaaag gaagaggcaa gaaacacaca gccttctcca
2641 gtaaaggcct gagtgatgaa gagtatgatg aattcaaaag gatcagggaa gaaagaaatg
2701 gaaggtactc cattgaggaa tacctgcaag accgggaccg ctactacgaa gaagtagcag
2761 ttgcccgggc aacagaggag gacttctgtg aagaggaaga ggctaaaata aggcaaagaa
2821 tctttcgccc aacaaggaag cagagaaaag aggaaagggg ggtgcttggc ctggttactg
2881 gttcggacat cagaaagagg agaccagatg acttccaacc aaagggcaat ttatgggcag
2941 atgacactag aagtgtggac tacaacgaga gacttgactt cgaggcccct ccaagtgtgt
3001 ggtcaaggat agtcccatta ggcaccggtt ggggcttttg ggtctcatcc aacctcctga
3061 ttacaacaac gcatgtcctg cctaagggca ttaaggaact ctttggcgtc gacgtcaaac
3121 agatccaaat ccacaaatct ggagaatttt gcaggtttag attcccaaga ccaatcaggc
3181 cagacgtctc agggctcgtg ttggaagagg gtgcaccaga aggcactgtc tgctccatac
3241 tcgtgaagag accaacaggt gagatgatcc ccctggcggt gaggatgggc acgcatgcat
3301 ctatgaaaat tcagggcagg actgttggtg gccaaatggg gatgcttctc acaggggcga
3361 atgcaaagaa catggacctt ggcaccggcc caggggattg cggttgccca tacatttaca
3421 agcgcggtaa tgacataatc gtggcaggtg tccacaccgc agcggcccga ggaggcaaca
3481 ctgtcatctg tgccactcaa gggcaggacg gggaagcagt ccttgaagga aatgagagtc
3541 ttggcacgta ctgcggtgcc ccaatcttag gtcctggcaa ggcgcccaag ctcagcacaa
3601 agaccaaatt ttggcgttca tcgccagatg ccctgccacc cggcacatat gaacctgctt
3661 acctgggagg caaggacccc agagtggaga aaggaccttc cctgcagcaa gtcatgaggg
3721 accagctgaa acccttcacg gaacccaggg gtaaaccacc aagacccgca gtcctggaag
3781 aggctaaaaa gacagtgatg aacgtcctgg aacaaaccat cgatcctgct aaaccatgga
3841 cctactcaca agcatgtgct tccttggata agaccacttc cagtggcagt ccccaccaca
3901 ttaggaaaaa tgaccattgg aatggagagt cttttacagg ccccctcgca gaccaagcat
3961 ctaaagctaa tcttatgtat gagcaggcca aacacatgca gcccgtgtac acagctgcac
4021 tcaaagatga gctcgtcaaa actgacaaaa tctacaaaaa gataaagaag aggctcctat
4081 gggggtcgga ccttggtaca atggttagat gcgccagggc ctttggtggt ctcatggaca
4141 gcatgaaagc aagttgtata gccctcccgt gcagagtggg aatgaacatg aatgaggacg
4201 ggcccatcat ctttgacaag cactccaaat acaggtacca ttatgatgct gactactcta
4261 ggtgggattc aactcaacaa agaagcatct tgaccgccgc tatggaagtg atggtgcggt
4321 tctctgcaga accagaattg gcacaagtgg ttgcagagga cctcctggca cctagccaac
4381 tggacgttgg cgactttgtc atctcagttc aggaaggttt accgtcagga gttccatgca
4441 cgtcacaatg gaattcaata gcccactgga ttttaacttt gagtgcaatg gcagaagtgt
4501 caggcctctc gccagatgtt gtacaagccc actcctgttt ctccttctat ggtgatgatg
4561 agattgtgag cactgacatt aaccttgacc cttcaaaact tacacagaaa ctcagggagt
4621 atggtctggt ccccacccga cccgacaaaa ctgaaggtcc cctcgtcata actgaagacc
4681 tcaccggcct aacattcctg cgcaggtcaa tcgcacggga ccctgccggg tggtttggaa
4741 agctggatca agactcaatt ctcagacagt tgtactggac aagagggccc aatcatgaga
4801 atccatatga aagtatggtc ccccactccc agcgggccac acagctcatg gcccttctcg
4861 gtgaggcctc attgcacggg ccccagttct acaagaaggt cagtaagatg gttatcagtg
4921 agatcaagag tggtggtctg gagttttatg tgcccagaca agaggccatg ttcaggtgga
4981 tgagattctc tgacctcagc acatgggagg gcgatcgcaa tcttgctccc gagagtgtga
5041 atgaagatgg cgtcgaatga cgctgctcca tcgaatgatg gtgctgccaa cctcgtacca
5101 gaggccaaca atgaggttat ggcacttgaa ccggtggtgg gagcctcaat cgcagctcct
5161 gtcgtcggtc aacagaatat aattgacccc tggattagag aaaattttgt tcaggcacca
5221 cagggtgagt ttactgtttc accaaggaac tcgcctggtg agatgcttct aaatcttgaa
5281 ttaggcccag agctcaaccc ttatctgagt catctatccc gcatgtacaa cggttatgct
5341 ggtggtatgc aggttcaggt ggtcctagct gggaatgcgt tcacagctgg taaaatcatc
5401 tttgccgccg ttccaccaca tttccctgta gagaatatca gtgcagccca aatcaccatg
5461 tgcccccatg tgattgttga tgtaaggcag cttgagccag tgcttttgcc cctccctgac
5521 ataaggaaca gattcttcca ttataatcag gaaaacaccc ctcgaatgag acttgtggct
5581 atgttgtata caccccttag agcaaactct ggtgaggatg tgttcacagt gtcttgcagg
5641 gtcttgaccc gcccagcccc tgactttgag ttcacgttct tagtgccacc aactgtggag
5701 tcaaagacta agccttttac actccctatt ttgactcttg gagagctatc caattccaga
5761 ttccccgctc caatagacat gctgtacaca gatcccaatg agacaattgt ggtacaacca
5821 caaaatggca gatgcaccct agatggaaca ctccaaggga ctacccagct ggtgcccacc
5881 caaatttgct cctttagggg cacgctaatt agccagacgt cgaggtctgc agagtcaaca
5941 gattcagctc cacgggtgag gaaccaccct ctccacgttc agttgaagaa ccttgatggg
6001 acaccatatg atccaacaga tgaggtacca gcagttctgg gtgccataga tttcaaagga
6061 actgtgtttg gagttgctag ccagagaaac accacaggga gctctgcagg agcgacccgt
6121 gctcatgagg tgcacataga taccacaaac cccagataca ccccaaaact tggttctgtg
6181 ttgatgtatt ctgagtctac tgattttgat gatggacaac ccacccgttt cacccctatt
6241 ggcatgggag cagatgattg gcgccaatgg gaattgcccg aatattccgg tcacctcact
6301 cttaatatga acctggcccc cgcagtcgcc cctgctttcc ccggtgagcg catcctcttc
6361 tttaggtcgg tggtgccatc tgctggtggt tatgggtcag gccagataga ctgcctcatc
6421 ccacaggaat gggttcagca cttctatcag gaggccgccc catcacaatc tgcggtggct
6481 cttattagat atgttaatcc tgacactggg agaaacatct ttgaggcaaa gctgcatagg
6541 gaaggattca tcactgtggc aaattctgga aacaacccca tagttgtgcc cccaaatggt
6601 tatttcaggt tcgaggcctg ggtcaatcaa ttttatacac tcacccccat gggaactgga
6661 caggggcgta gaagagttca ataatggcag gagctttctt tgctgggttg gcaggtgacg
6721 ccataacaaa tggtgtcggg tccctgatca gtgctggggc caatgcaatt aaccagaaag
6781 tagagtatga tttcaacaaa caactccaat tggcatcctt taaacatgac aaggaaatgt
6841 tgcagtcaca agttctggcc actaaacagc tccagcagga aatgatgaac ataaggcaag
6901 gggttttgac cgctggcggc ttttccccta cagatgccgc gagaggcgct gtgaacgcgc
6961 cgatgacaaa aattttggat tggaatggca caagatactt tgctccaaac agtatgaaga
7021 caaccagtta ttcgggccag ttttctagta accctgtaca taggcaacct actttgtccc
7081 gttctgaccc cccaaaagtt aaggttaata gtgattctgc tagtgtgtat agttctgcat
7141 ctattgcccc ttcacaatca acccattcaa cggttctgac tgcagggtct gggtcatcca
7201 ggacaacctc ttcgtccaca gcagcttcca ccctatctag gactagcgac tgggtaaggg
7261 gacaaaatga gaggcttagc ccgttcatgg atggtgctct ccaaacaact tttgtcacac
7321 caccatcgag caaggcttca tcaaatgggt cggtctcaac cgttcccaaa gctgttttgg
7381 actcctggac tcctatgttt aacacccata ggcagcctct cttcgctcat gtgcgtaggc
7441 gaggggagtc acaaatttag tgaaaagatt gattaggttt tctttccttc ttcttttcct
7501 tttctttct
//