Typing tool
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Typing tool
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Complete norovirus genomes
| MZ291634 | GII.4 Den Haag | |
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| GII.P4 Den Haag |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7509
LOCUS MZ291634 7546 bp RNA linear VRL 30-MAY-2021
DEFINITION Norovirus GII isolate Hu/US/2010/GII.4 Den Haag[P4 Den Haag]/CA1131
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION MZ291634
VERSION MZ291634.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7546)
AUTHORS Pan,C.-Y., Huynh,T., Padilla,T., Montmayeur,A.M., Chhabra,P.,
Barclay,L., Vinje,J., Wadford,D.A. and Morales,C.
TITLE Direct Submission
JOURNAL Submitted (25-MAY-2021) Viral and Rickettsial Disease Laboratory,
California Department of Public Health, 850 Marina Bay Parkway,
Richmond, CA 94804, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. R10; SPades v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7546
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="CA-RGDS-1131"
/isolate="Hu/US/2010/GII.4 Den Haag[P4 Den Haag]/CA1131"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="18-Nov-2010"
/note="Amplicon sequencing: first 31 nt does represent
primer sequence;
genotype: GII.4 Den Haag[P4 Den Haag]"
gene 1..5100
/gene="ORF1"
CDS 1..5100
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QVV57756.1"
/translation="MKMASNDASAAAVANSNNDTAKSSNDKMFSNMAVTLKRALGARP
KQPPPREIPQRPPRPPTPELIKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPE
ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LARVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGR
LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED
LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAKNKYGLMDTMKIGRQLKDVKTM
PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVATRIIKRVNIQDLWSKPQVENTEEATSKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTKGP
NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 1..990
/gene="ORF1"
/product="p48"
mat_peptide 991..2088
/gene="ORF1"
/product="NTPase"
mat_peptide 2089..2625
/gene="ORF1"
/product="p22"
mat_peptide 2626..3024
/gene="ORF1"
/product="VPg"
mat_peptide 3025..3567
/gene="ORF1"
/product="Pro"
mat_peptide 3568..5097
/gene="ORF1"
/product="RdRp"
gene 5081..6703
/gene="ORF2"
CDS 5081..6703
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QVV57757.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRSNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTKGDGSTRGHKATVYTGSADFTPKLGSVQFGTDTENDFETHQNTRFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNVHNVHLAPAVAPNFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAYTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6703..7509
/gene="ORF3"
CDS 6703..7509
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QVV57758.1"
/translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQRIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQELMKVKQAILLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRINPRTPIPARGSPSISS
NVSTATSIHSNQTASTRLGSTAGSVTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKDVLDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgctgttg ctaacagcaa caacgacacc
61 gcaaaatctt caaatgacaa aatgttttct aacatggctg tcactcttaa acgagccctc
121 ggggcgcggc ctaaacagcc ccccccgagg gaaataccac aaagaccccc acgaccacct
181 actccagaac tgatcaaaaa gatccctcct cccccgccca acggagagga tgaagtagtg
241 gtttcttata gtgccaaaga tggcgtttcc ggtttgcctg agctttccac cgtcaggcaa
301 ccggaagaaa ccaatacggc cttcagtgtc cctccactca atcagaggga gaatagggat
361 gctaaggagc cactgactgg aacaattctg gaaatgtggg atggagaaat ctaccattat
421 ggcctgtatg ttgagcgagg tcttgtgctg ggtgtacaca aaccaccagc tgccattagc
481 ctcgccaggg tcgaattaac accactctcc ttgttctgga gacctgtgta cactcctcag
541 tacctcattt ctccagacac tctcaagaag ttacacggag aaacatttcc ctacacagcc
601 tttgacaaca actgctatgc cttttgttgt tgggtcctgg atctaaacga ctcgtggctg
661 agcaggagaa tgatccagag aacaactggc ttcttcagac cctaccaaga ttggaatagg
721 aaacccctcc ccactatgga tgattccaaa ttaaagaagg tagctaacat attcctgtgt
781 gccctgtctt cgctattcac caggcccata aaagacataa taggaaggtt aaggcctctc
841 aacatcatca acatcctggc ttcatgtgat tggactttcg caggcatagt ggagtccttg
901 atactcttgg cagagctctt tggagtcttc tggacacccc cagatgtgtc tgcgatgatt
961 gcccccttac tcggtgattt cgagttacaa ggacctgaag accttgtagt ggagctcgtc
1021 cctgtagtaa tgggggggat tggtctggtg ctaggattca ccaaagagaa gattggaaaa
1081 atgttgtcat ctgctgcatc caccttgaga gcttgtaaag accttggtgc atatgggcta
1141 gaaatcctaa agttagtcat gaagtggttc ttcccgaaga aagaggaagc taatgaactg
1201 gctatggtga gatccatcga ggatgcggta ctggaccttg aggcaattga aaacaaccat
1261 atgaccacct tgctcaaaga caaagatagc ctggcaacct acatgagaac ccttgacctc
1321 gaggaagaga aagccagaaa actctcaacc aagtctgctt cacctgacat cgtgggcaca
1381 atcaacgcac ttctggcgag aatcgccgct gcacgctccc tggtgcaccg agcgaaggag
1441 gagctttcca gcagaccaag acctgtagtc ttgatgatat caggcaggcc aggaataggg
1501 aagacccacc ttgctaggga agtggctaag agaatcgcag cctccctcac aggagaccag
1561 cgtgtaggcc tcatcccacg caatggcgtc gaccactggg atgcgtacaa gggggagagg
1621 gtcgtcctat gggacgacta tggaatgagc aatcccatcc acgacgccct caggctgcaa
1681 gaactcgctg acacttgccc cctcacccta aattgtgaca ggattgagaa taaaggaaag
1741 gtctttgaca gcgatgtcat cattatcact actaatctgg ccaacccagc accactggac
1801 tatgtcaact ttgaagcatg ctcgaggcgc atcgatttcc tcgtgtacgc agaagccccc
1861 gaggtcgaaa aggcgaagcg cgacttcccg ggccaacctg acatgtggaa aaacgctttt
1921 agttctgatt tctcacacat aaaactggca ctggctccac aaggtggctt tgataagaac
1981 gggaacaccc cacacgggaa gggcgtcatg aagactctca ccactggctc cctcattgcc
2041 cgggcatcag ggctgctcca cgagagattg gatgagtttg agctacaggg cccagctctc
2101 accaccttca actttgaccg caacaaagtg cttgccttca ggcagcttgc tgctaaaaac
2161 aaatatgggt tgatggacac aatgaaaatt gggaggcagc tcaaggatgt caaaaccatg
2221 ccagaactta aacaagcact caagaatatc tcaatcaaga agtgccagat tgtgtacagt
2281 ggttgcacct acacacttga gtctgatggc aaaggcaatg tgaaagttga cagagtccag
2341 agtacctccg ttcagactaa caatgagttg gctggcgccc tgcaccatct aaggtgcgcc
2401 agaatcaggt attatgttaa gtgtgttcag gaggccctgt attctatcat ccagattgct
2461 ggggctgcat ttgtcgccac gcgcatcatc aagcgtgtga acattcaaga cttatggtcc
2521 aagccacaag tggaaaacac agaggaggct accagcaaag acgggtgccc aaaacccaaa
2581 gatgatgagg agttcgtcat ttcatctgac gacattaaaa ctgagggtaa gaaagggaag
2641 aacaagactg gccgtggtaa aaagcataca gccttctcaa gtaaaggtct cagtgatgaa
2701 gagtatgatg agtacaagag aattagagag gaaagaaatg gcaagtactc catagaagag
2761 tacctacagg acagggacaa atactatgag gaggtggcca ttgccagggc gaccgaggaa
2821 gacttctgtg aagaggagga ggccaagatc cggcaaagga tcttcagacc aacaaggaaa
2881 caacgcaagg aagaaagggc ttctctcggt ttagtcacag gttctgaaat taggaaaaga
2941 aatccagaag acttcaagcc caaggggaaa ctatgggctg acgatgacag aagtgtggac
3001 tacaatgaaa aactcagttt tgaggcccca ccaagcatct ggtcaaggat agtcaacttt
3061 ggttcaggtt ggggcttctg ggtctccccc agcctgttca taacatcaac ccacgtcata
3121 ccccagggcg caaaggagtt ctttggagtc cccatcaaac aaattcaggt gcacaagtca
3181 ggcgaattct gtcgcttgag gttcccaaaa ccaatcagga ctgatgtgac tggcatgatc
3241 ttggaagaag gtgcgcccga aggcaccgtg gtcacactac ttatcaaaag gtctactgga
3301 gaactcatgc ccctagcagc tagaatggga acccacgcaa ccatgaaaat tcaagggcgc
3361 actgttggag gtcagatggg catgcttcta acaggatcca acgccaaaag catggatcta
3421 ggtaccacac caggtgattg tggctgtccc tacatctaca agagaggaaa cgactatgtg
3481 gtcattggag tccacacggc tgccgctcgt gggggaaaca ctgtcatatg tgccacccag
3541 gggggtgagg gggaagctac acttgaaggt ggtgacagta agggaacata ctgtggtgca
3601 ccaatcctag gcccagggag tgccccaaaa ctcagcacca aaaccaaatt ctggagatca
3661 tccacagcac cacttccacc tggcacctat gaaccagcct accttggtgg taaagacccc
3721 agagtcaagg gtggcccctc gttgcagcaa gtcatgagag accagctgaa accatttaca
3781 gagcctaggg gtaagccacc aaagccaagt gtgttagaag ctgccaagaa aaccatcatc
3841 aatgtccttg aacagacaat tgacccacct gagaagtggt cgttcgcaca agcttgcgcg
3901 tcccttgata agaccacttc tagcggccat ccgcaccaca tgcggaaaaa cgactgctgg
3961 aacggggagt ccttcacagg caagctggca gaccaggctt ccaaggccaa cctgatgttt
4021 gaagaaggga agaacatgac cccagtctac acaggtgcac ttaaggatga attagtcaaa
4081 actgacaaaa tttatggcaa gatcaagaag aggcttctct ggggctcgga tttggcaacc
4141 atgatccggt gtgctcgagc attcggaggt cttatggatg aactcaaagc acactgtgtc
4201 acacttcctg tcagagttgg tatgaatatg aatgaggatg gccccatcat cttcgagaag
4261 cattccagat acagatacca ctatgatgct gattactctc ggtgggattc aacacaacag
4321 agagccgtgc tggcagctgc tctagaaatc atggttaaat tctcctcaga accacatttg
4381 gctcaggtag tagcagaaga ccttctttct cctagcgtag tggatgtggg tgacttcaca
4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc
4501 gcccactggc ttctcactct ctgcgcactc tccgaagtca caaatttgtc tccagacatc
4561 atacaggcta attctctctt ctccttctat ggtgatgatg aaattgttag tacagacata
4621 aaattagacc cagagaagtt gacagcaaag cttaaggaat atgggttgaa accaacccgc
4681 cctgacaaaa ctgaagggcc tcttgttatt tctgaagact tagacggttt gactttcttg
4741 cggagaactg tgacccgcga ccctgctggt tggtttggaa aactggagca gagctcaata
4801 ctcaggcaaa tgtactggac taagggcccc aaccatgaag acccatctga atcaatgatc
4861 ccacactctc aaagacccat acaattgatg tccttactgg gagaggccgc actccacggc
4921 ccaacattct acagtaaaat cagcaaatta gtcattgcag agctaaaaga aggtggcatg
4981 gatttttacg tgcccaggca ggagccaatg ttcagatgga tgagattctc ggatctgagc
5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgaatga
5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggttat
5161 ggctttggag cccgttgtcg gtgccgctat tgcggcgcct gtagcgggcc aacaaaatgt
5221 aattgacccc tggattagaa gtaactttgt acaagcccct ggtggagagt tcacagtatc
5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ttaggccctg atctgaatcc
5341 ctacctatct catttggcca gaatgtataa tggttatgca ggtggttttg aagtgcaggt
5401 gatcctcgcg gggaacgcgt tcaccgcggg aaaaattata tttgcagcag tcccaccaaa
5461 ttttccaact gaaggcttga gtcccagtca ggttactatg ttcccccaca taatagtaga
5521 tgttaggcaa ttggaacctg tgttgatccc cttacctgat gttaggaata acttctatca
5581 ctataaccag tcaaatgatt ctaccattaa attgatagca atgctgtaca caccactcag
5641 ggccaataat gccggggatg atgtcttcac agtctcttgt cgagtcctca cgaggccatc
5701 ccctgatttt gacttcatat ttctggtgcc acctacagtt gagtcaagaa ctaagccatt
5761 tactgtccca atcttgactg ttgaagaaat gaccaattca agattcccca ttcctttgga
5821 gaaattgttc acgggtccca gcagtgcctt tgttgttcaa ccacaaaatg gcagatgcac
5881 aactgatggc gtgctcttag gcaccaccca actgtctcct gtcaacatct gcaccttcag
5941 aggggatgtc acccacattg cgggttcccg taattacaca atgaatttgg cctctctaaa
6001 ttggaacaat tatgacccaa cagaagagat tccagcccct ctgggaactc cagatttcgt
6061 gggaaagatc caaggtgtgc tcactcaaac cacaaaggga gatggctcga cccggggcca
6121 taaagctaca gtttacactg ggagtgccga cttcactcca aagctgggca gtgttcaatt
6181 tggtactgac acagaaaatg actttgaaac tcaccaaaac acaagattta ccccagtcgg
6241 tgtcattcag gatggtagca ccacccaccg aaatgaaccc caacaatggg tgctcccaag
6301 ttattcaggt agaaatgtcc ataatgtaca cctagcccct gctgtagccc ccaattttcc
6361 aggtgaacaa ctccttttct tcaggtccac tatgcccgga tgcagcgggt atcccaacat
6421 ggatttggat tgcctactcc cccaggagtg ggtgcaacac ttctaccaag aggcagctcc
6481 agcacaatct gatgtggctt tattgagatt tgtgaatcca gacacgggta gggtcttgtt
6541 tgagtgcaaa ctccataaat caggctatgt cacagtggct tataccggcc aacatgattt
6601 ggtcatcccc cccaatggtt attttaggtt tgattcctgg gttaatcagt tctacacact
6661 tgcccccatg ggaaatggaa cggggcgtag acgtgcttta taatggctgg agctttcttt
6721 gctggattgg catctgatgt ccttagctct ggacttggtt ccctaatcaa tgctggggct
6781 ggggctatca accaaaggat tgattttgaa aataatagaa aattgcagca agcttccttt
6841 cagtttagta gtaatctaca acaggcttcc tttcaacatg ataaagagat gctccaagca
6901 caaattgagg ccactaaaaa gttgcaacag gaactgatga aagtcaaaca ggcaatactc
6961 ttagaaggtg gattttctga aacagatgca gcccgtgggg caatcaacgc ccccatgaca
7021 aaggctttgg actggagtgg aacaaggtac tgggcccctg atgctaggac tacaacatac
7081 aatgcaggcc gcttttccac ccctcaacct tcgggggcac tgccaggaag aatcaacccc
7141 aggactccta tccccgcccg gggctcccca agcatatctt ccaatgtttc tactgctact
7201 tctatacatt caaatcaaac tgcttcaacg agacttggtt ctacagctgg ttctgtcacc
7261 aatgtctcga gtctcccgtc aactgcaagg actaggagtt gggttgagga tcaaaacaga
7321 aatttgtcac ctttcatgag gggggctcac aacatatcgt ttgtcacccc accatctagc
7381 agatcctcca gccaaggcac agtctcaacc gtgcctaaag atgttttgga ctcctggact
7441 ggcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgtaggcg aggggagtca
7501 cgggtgtaat gtgaaaagac aaaattgatt atctttccct ttcttt
//