Typing tool
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Typing tool
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Complete norovirus genomes
| MW305729 | GII.4 | |
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| GII.PNA3 |
ORF1: 1..5068
ORF2: 5049..6668
ORF3: 6668..7474
LOCUS MW305729 7516 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate CHDC2904 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305729
VERSION MW305729.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7516)
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JOURNAL Unpublished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 7516)
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..7516
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="CHDC2904"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="30-Mar-1974"
/note="genotype: GII.4[GII.PNA3]"
gene <1..5068
/gene="ORF1"
CDS <1..5068
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="QPJ59523.1"
/translation="AVANSNNDTAKSSSDGVLSSMAVTFKRALGARPKQPPPREIPQR
PPRPPTPELVKKIPPPPPNGEGEPVVSYSVKDGVSGLPELSTVRQPDETNTAFSVPPL
NQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELAPLSL
FWRPVYAPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPLNILNILA
SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEASELAMV
RSIEDAVLDLEAIENNHLTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLARELAKKIATTLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDVEKAKRDFPGQPDM
WKNAFSPDFSHIKLMLAPQGGFDKNGNTPHGKGVMKTLTIGSLIARASGLLHERLDEY
ELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGGQLKGVRTMPELKQALKNIS
IKRCQIVYGGSTYTLESDGKGGVKVDRVQSTTVQTNNELAGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQLENTEEAASKDGCPKPKDDEEFVV
SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD
DFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGTQEFFGVSIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPT
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGSAPKLSTKT
KFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKQPKPSVLE
AAKRTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHIRKNECWNGDSFTGKLAD
QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAILAAA
LEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFKISINEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIQLDPEKLTAKLKEYGLKPTRPDK
TEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSETMIP
HSQRPIQLMSLLGEAALHGPAFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPSFVNEDGVE"
mat_peptide <1..958
/gene="ORF1"
/product="p48"
mat_peptide 959..2056
/gene="ORF1"
/product="NTPase"
mat_peptide 2057..2593
/gene="ORF1"
/product="p22"
mat_peptide 2594..2992
/gene="ORF1"
/product="VPg"
mat_peptide 2993..3535
/gene="ORF1"
/product="Pro"
mat_peptide 3536..5065
/gene="ORF1"
/product="RdRp"
gene 5049..6668
/gene="ORF2"
CDS 5049..6668
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59524.1"
/translation="MKMASSDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNIIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLSPDLNPYLSHLSRMYNGYAGG
FEVQVILAGNAFTAGKIIFAAIPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQAHDSTLKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMSNSRFPIPLEKLYTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSAVNICNFRGDVTRVGISHDYTMNLVSQNWNNYDPTEEIPAPLGTPDFVGKIQGLL
TQTTRADGSTRAHKATVSTGSVHFTPKLGSVQFTTDTNNDFQTGQNTKFTPVGVIQDG
DHHQNEPQQWVLPNYSGTSGHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMNLDC
LLPQEWVSHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYITVAHTGPYDLVI
PPNGYFRFDSWVNQFYTLAPMGNGSGRKRVL"
gene 6668..7474
/gene="ORF3"
CDS 6668..7474
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59525.1"
/translation="MAGSFFAGLASDVLGSGLGSLINAGAGAINQRVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIDATQKLQQGLMQIKQAVLLEGGFSAADAARGAIN
APMTKTLDWSGTRYWAPEARVTTYNAGHFSPSQPSRTPSGRISSVTSASVRNSPSLSS
KSSTATTVYSNQTVSTRLGSSAGSGTSVSSLPSASRTRSWVEDQNRSVSPFMRGALNT
SFVTPPSSRSSNQSTVSTVPKEILDSWTGAFNTRRQPLFAYIHKRGESRV"
ORIGIN
1 cgctgttgct aacagcaaca acgacaccgc aaaatcttca agtgacggag tactttctag
61 tatggctgtc acttttaaac gagccctcgg ggcgcggcct aagcagccgc ccccgaggga
121 gataccacaa agacccccac gaccgcccac tccggagttg gtcaagaaaa tccctccccc
181 cccgcccaac ggggagggtg agccagtggt ctcttacagt gtcaaagatg gcgtttccgg
241 gttgcctgag ctctccactg tcaggcaacc agatgagacc aacacggcat ttagtgttcc
301 cccactcaac cagagagaga acagggatgc caaggagcca ctgactggaa caatcctgga
361 gatgtgggac ggggaaatct accattatgg cttgtacgtt gaacgaggcc tggtgcttgg
421 cgtgcacaaa ccaccagcag ccattagcct tgccaaggtt gaattggcac cactttcttt
481 gttctggaga cctgtgtacg ccccccagta tctcatctcc ccagacactc tcaggagact
541 gcatggggaa tcattcccct acacagcctt tgacaacaac tgctatgcct tctgttgctg
601 ggttttagac ctgaacgatt cgtggctgag taggaggatg atacagagga caactggctt
661 cttcaggcct taccaagact ggaataggaa accccttccc accatggatg actccaaact
721 gaagaaggtg gccaacatat tcctgtgtgc tttgtcttca ctattcacca ggcccatcaa
781 ggacataata gggaagctaa ggcctcttaa catcctcaac attttggctt catgtgattg
841 gacctttgca ggcatagtgg aatccctaat tctcttggca gagctctttg gagttttctg
901 gacaccccca gatgtgtctg cgatgatcgc ccccttactg ggtgactatg agctacaggg
961 gcctgaggac ctcgcggtag agctagtgcc agtagtgatg ggggggatag gtttggtgtt
1021 gggattcacc aaagaaaaga ttgggaagat gttgtcatct gctgcatcca cattgagggc
1081 ttgtaaagac cttggtgcat atggactgga gatcctaaaa ctagtcatga aatggttctt
1141 cccaaagaaa gaggaagcaa gcgagttagc catggtgaga tctatcgagg acgcggtgtt
1201 ggacctcgaa gcaattgaga acaatcactt gaccaccctg cttaaggaca aggacagcct
1261 ggcgacttac atgagaactc ttgaccttga ggaagagaaa gccaggaagc tctcaaccaa
1321 gtccgcctca cctgatatcg tgggtacaat caacgctctc ctggcaagga ttgcggctgc
1381 ccgctcccta gtacatcggg caaaggaaga actttccagc agaccgagac ccgttgttgt
1441 gatgatatca ggaaagccag ggataggaaa gactcaccta gccagagagc tggccaagaa
1501 gatcgcaacc accctcacag gggaccagag ggtgggcctc atcccacgca atggcgttga
1561 ccactgggat gcatacaagg gagagagggt cgtcctttgg gacgactacg ggatgagcaa
1621 ccccatccat gacgctctca gattgcagga gcttgctgac acttgccccc tgacactaaa
1681 ttgtgatagg attgaaaaca aaggtaaagt ttttgacagt gatgccataa ttatcaccac
1741 caacttggcc aacccagcac cactggacta tgtcaatttt gaggcctgct cgaggcgcat
1801 tgatttcctc gtgtacgccg acgcccctga tgtcgaaaag gcgaagcgcg acttcccagg
1861 ccaacctgac atgtggaaaa atgctttcag ccctgatttc tctcacataa agctgatgct
1921 ggccccacag ggtggttttg acaagaacgg caacacccca catgggaagg gcgtcatgaa
1981 gaccctcacc attggttccc tcatcgcccg tgcttcaggg ctcctccacg agaggctgga
2041 tgagtacgag ctgcaaggcc cagccctcac aaccttcaac tttgaccgaa acaaagtgct
2101 cgctttcaga cagcttgctg ctgaaaataa gtacggactg atggacacaa tgagggttgg
2161 agggcaactc aagggcgtta gaaccatgcc agagctcaag caagcactca agaacatttc
2221 aattaagagg tgccagatag tgtatggtgg cagcacttat acacttgaat ctgatggcaa
2281 gggtggtgtg aaggtcgaca gagttcagag taccaccgta cagaccaata atgagttagc
2341 cggcgccctg caccacctca ggtgcgccag gatcaggtac tatgtcaagt gtgtccagga
2401 ggccctgtac tccatcatcc aaattgcagg ggccgcattt gtcaccacgc gcattgtcaa
2461 gcgcatgaac atacaggacc tttggtccaa gccacaactg gagaacacag aagaagctgc
2521 tagcaaagat gggtgcccaa aacccaaaga tgatgaggag tttgttgttt catctgatga
2581 catcaagacc gagggtaaga aaggaaagaa caagactggt cgcggcaaga agcacacagc
2641 cttctcgagt aagggtctca gtgacgagga gtacgatgag tacaaaagaa tcagggagga
2701 aagaaacggc aagtactcta tagaggagta tctccaagac agagacaagt attatgagga
2761 ggttgccatt gccagggcga ctgaggagga cttctgcgaa gaagaagagg ccaagatccg
2821 tcaaagaatc tttagaccaa caaggaagca acgcaaggag gagagggctt ctctcggttt
2881 agtcacaggc tctgagatca gaaaaagaaa cccagatgac ttcaaaccca agggaaaact
2941 gtgggccgat gacgacagaa gtgtcgatta caatgagaaa ctcagttttg aagccccacc
3001 aagcatctgg tcaaggatag tcaactttgg ttcgggttgg ggtttctggg tttctcctag
3061 tctgttcata acatcaactc atgttatacc ccagggcaca caggagttct ttggggtgtc
3121 catcaaacaa atccaggtac acaaatcagg cgaattttgc cgcttgaggt tcccaaagcc
3181 aataaggact gatgtgacgg gcatgatctt agaggaaggt gcccccgaag ggaccgtggc
3241 cacactactc atcaagaggc caactggtga gctcatgccc ttagcggcca ggatgggcac
3301 tcacgcaacc atgaagatcc aaggtcgcac tgttgggggc caaatgggta tgctcctgac
3361 agggtccaat gccaaaagta tggacttggg caccacaccc ggcgactgtg gttgtcccta
3421 catctacaag agagggaacg actacgtggt catcggagtt cacacagccg ctgcccgtgg
3481 aggaaacact gtcatatgtg ccacccaggg aagtgaaggt gaggccacac ttgaaggcgg
3541 tgataataaa ggtacttact gtggtgcccc gatcttaggt ccaggaagtg ccccaaaact
3601 cagcaccaaa accaagttct ggaggtcatc cacagcacca ctccctcctg gtacctatga
3661 gccagcctac ctcggtggta aggatcccag ggttaagggt ggtccatcac tacaacaagt
3721 catgagggac cagttgaaac cattcactga accaagaggt aaacaaccaa aaccaagtgt
3781 gttggaagct gccaagagaa ccatcattaa tgttcttgaa caaacaatag acccacctca
3841 gaaatggtca tttgcgcaag cttgcgcttc tcttgacaaa accacctcca gtggccatcc
3901 acaccatata cggaagaatg aatgctggaa tggagattcc tttacaggta aattggcaga
3961 ccaggcctca aaggccaact tgatgtttga ggagggaaag aacatgactc cagtttacac
4021 aggtgccctc aaggatgagt tagtcaaaac tgacaagata tatggcaaga tcaagaagag
4081 gctactttgg ggatcggacc tggcaaccat gatccggtgt gcccgggctt tcggaggcct
4141 aatggatgaa ctcaaggctc actgtgtcac actccctgtc agagttggta tgaacatgaa
4201 tgaagacggc cccatcatct ttgaaaaaca ttctaggtac aggtaccact atgatgcaga
4261 ttactctcga tgggactcaa cacaacagag agccatattg gctgcagccc tagagatcat
4321 ggtcaaattc tccccagagc cacacttagc tcaaatagtt gcagaagacc ttctatcccc
4381 cagtgtgatg gatgtaggtg attttaagat atcaatcaac gagggccttc cctctggggt
4441 gccttgcacc tcacaatgga actccatcgc ccactggctc ctcaccctct gtgcactctc
4501 tgaagttacg gacctctccc ctgacatcat ccaggctaat tctctcttct ctttctatgg
4561 tgatgatgaa attgtgagta cagacataca attggaccca gaaaaactga cagcaaagct
4621 aaaggaatac gggctgaagc caactcgccc tgataagact gagggacctc tgattatttc
4681 tgaggaccta aatggtttaa ccttccttcg gaggaccgtg acccgcgacc cagctggttg
4741 gtttggtaaa ttggaacaga gttcgatact caggcagatg tactggacca ggggccccaa
4801 ccatgaggac ccttctgaaa caatgatacc acattcccaa aggcccatac aactgatgtc
4861 cctgctgggt gaggctgcac tgcatggccc agcgttctac agcaaaatca gcaagctagt
4921 catcacagag ctaaaggaag gtggcatgga tttttacgtg cccagacaag agccgatgtt
4981 caggtggatg aggttctcag acctgagcac gtgggagggc gatcgcaatc tggctcccag
5041 ttttgtgaat gaagatggcg tcgagtgacg ccaacccatc tgatgggtcc acagccaacc
5101 tcgtcccaga ggtcaacaat gaggttatgg ctttggagcc tgttgtcggt gctgccattg
5161 cagcacctgt ggcaggccaa caaaatataa ttgacccctg gattagaaat aattttgtgc
5221 aagcccctgg tggagagttc acagtgtccc ctagaaatgc tccaggtgag atactatgga
5281 gcgcgccctt gagccctgat ttgaacccct atctttctca cctgtccaga atgtacaatg
5341 gttatgcagg tggctttgaa gtgcaggtaa tcctcgcagg gaatgcgttc actgccggga
5401 aaatcatatt tgcagcaatt ccaccaaatt ttccaactga aggcttaagc cctagccagg
5461 ttacaatgtt cccccacata attgtagatg tcaggcaatt ggaacctgta ttaatccccc
5521 tacctgatgt taggaataat ttctatcatt ataatcaagc acatgattct actctcaaat
5581 tgatagcaat gttgtataca ccactcagag ccaataatgc cggggatgat gtcttcacag
5641 tctcttgtcg agtcctcacg agaccatccc ccgattttga tttcatattc ctggtgccac
5701 ccacagtcga gtcaagaact aagccattca ctgtccctat cttaactgtt gaggaaatgt
5761 ccaattcaag attccccatt cccttagaaa agttgtatac gggtcctagc agtgcttttg
5821 ttgttcaacc acaaaatggc agatgcacga ctgatggcgt gcttctaggc actactcagt
5881 tgtcagctgt caatatctgt aatttcaggg gggatgtcac ccgtgttggg atcagccatg
5941 attacacaat gaatttggtg tcccaaaatt ggaataacta tgatccaaca gaggaaatcc
6001 ctgctcccct gggaacacca gactttgtgg gtaagatcca aggtctgctc actcaaacca
6061 caagagcaga cggctcgact cgtgcccaca aagccacagt gagcactggg agcgttcact
6121 tcaccccaaa gctgggtagt gtccaattca ccaccgacac aaacaatgac tttcaaactg
6181 gccaaaatac aaaattcacc ccagttggtg tcatccaaga tggtgatcac caccagaatg
6241 aaccccaaca atgggtgctc ccaaattact caggcacctc tggtcacaat gtgcatctgg
6301 cccctgccgt tgctcccact ttccccggtg agcagcttct tttctttagg tccaccatgc
6361 ccgggtgcag cgggtaccct aacatgaatt tggattgcct gctcccacag gagtgggtgt
6421 cgcacttcta tcaggaagca gccccagcac aatcagatgt ggccctgctg agatttgtga
6481 atccagatac aggtagggtt ttgtttgagt gcaaactcca taaatcaggc tacatcacag
6541 tggctcacac tggtccgtat gatttggtta ttccccccaa tggttatttc agatttgatt
6601 cttgggtcaa ccagttttac acacttgccc ccatgggaaa tggatcgggg cgcaagcgtg
6661 tgttataatg gctggatctt tctttgctgg attggcatct gatgttcttg gttctggact
6721 tggttctcta atcaatgccg gagccggagc gatcaatcaa agagtggaat ttgaaaataa
6781 taggaaatta cagcaagctt ccttccaatt tagcagcaat ttacaacaag cttcctttca
6841 acatgacaaa gaaatgcttc aggctcaaat tgatgctact caaaaattgc agcagggctt
6901 aatgcagatc aagcaggcgg tgcttctgga aggtgggttt tctgcggcag acgccgctcg
6961 tggggcaatc aacgcgccca tgacaaaaac cctggactgg agtggaacta ggtactgggc
7021 tcccgaggcc agagtcacaa catacaatgc aggccatttc tccccttccc agccttctag
7081 gacgccgtct gggaggatta gttctgtgac ttctgcatct gtgcgaaatt cccccagctt
7141 atcttctaaa tcttctactg ctacaactgt gtattctaat caaactgttt caacgagact
7201 tggttcttca gctggttctg gaaccagtgt ctcgagcctc ccgtcggctt ccagaaccag
7261 gagctgggtt gaggaccaaa acaggagcgt gtcacccttc atgaggggag cactcaacac
7321 atcatttgtt actcctccat ctagcagatc ctctaaccag agcacagtct caaccgtacc
7381 caaagaaatt ttggactcct ggactggcgc tttcaacacg cgcaggcagc cgctcttcgc
7441 atacatccat aagcgagggg agtcacgggt ttgaagtgaa aagacaatct gatctttctt
7501 tattttaatg tctttt
//