Typing tool
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Typing tool
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Complete norovirus genomes
| MW305724 | GII.3 | |
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| GII.P13 |
ORF1: 1..5080
ORF2: 5061..6707
ORF3: 6707..7471
LOCUS MW305724 7502 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate CHDC2005 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305724
VERSION MW305724.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7502)
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JOURNAL Unpublished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 7502)
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..7502
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="CHDC2005"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="07-Nov-1975"
/note="genotype: GII.3[GII.PNA]"
gene <1..5080
/gene="ORF1"
CDS <1..5080
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="QPJ59508.1"
/translation="VAGKNNNNDNAKSSSDNLFSNMTVTFKKALGARPKQPPPGETKQ
TSKPPRPPTPELVKKIPPPPPNGEGEPVVVYRVGEGVSGLPDLTTVTQPDAQNTAYSI
PPLSQREPGDAKEPLPGSIIEMWDGEIYHYGLYVERGHVLGVHKPPAAISLAKIELTP
LSLYWRVVYTPQYLIAPDTLKNLNGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQ
RTTGFFRPYQEWNRKPLPTIDEPKIKKAANAFLCALSSLFTRPIKDIIGKLKPLNILN
ILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAVELVPV
VMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANEL
AMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIV
GTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELAKKVAATL
AGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCPLTLNCDR
IENKGKVFDSDAIVITTNLANPAPLDYVNFEACSRRIDFLVFADAPDVEKAKRDFPGQ
PDMWKDHYRPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKSLTVGSLIARASGLLHERM
DEFELQGPTLPTFNFDRNKVAAFRQLAAENRYGMMDTLRVGNQLKSVKTMSELKQAIK
NITIKKCQIVYNGCTYTMESDGRGAVSVEKVQSTTVQNNNELVGALYHLRSARIRYYV
KCFQEALYSVLQIAGAAFVTSRIIKRMNISNLWSKPPVEDSDETESKEGCPKPRDDEY
EFVVDSKDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEY
LQDRDRYYEELAIAKATEEDFCEEEEVRIRQRIFRPTRKQRKEERATLGLVTGSEIRK
RNPEDFKPKGKLWADDNRSVDYNERIDFEAPPSIWSRIVSFGSGWGFWVSPSLFITST
HVIPKGITEAFGVPINQIQVHKSGEFCRLRFPKPIRTDVSGMILEEGAPEGTVATILV
KRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIY
KRGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGSAPKL
STKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPNP
SVLESAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGESFTG
KLADQASKANLMFEEGKHMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTMIRCA
RAFGGLMDEFKAHCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAV
LAAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKITINEGLPSGVPCTSQWNSIA
HWLLTLCALSEVTGLGPDIIQANSVYSFYGDDEIVSTDIKLDPEKLTTKLKEYGLKPT
RPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTRGPNHEDPNE
TMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQESMFRWMR
FSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..967
/gene="ORF1"
/product="p48"
mat_peptide 968..2065
/gene="ORF1"
/product="NTPase"
mat_peptide 2066..2605
/gene="ORF1"
/product="p22"
mat_peptide 2606..3004
/gene="ORF1"
/product="VPg"
mat_peptide 3005..3547
/gene="ORF1"
/product="Pro"
mat_peptide 3548..5077
/gene="ORF1"
/product="RdRp"
gene 5061..6707
/gene="ORF2"
CDS 5061..6707
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59509.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKVIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPINLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFTLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGTLTRSTSRAGDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPAP
LGTPDFRGKVFGVASQRNPDSTTRAHEAKVDTTSGRFAPKLGSLEISTESSDFDSNQP
TRFTPVGIGVDNEADFQQWSLPDYSGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
gene 6707..7471
/gene="ORF3"
CDS 6707..7471
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59510.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGASAINQKVDFENNKYLQNA
SFAHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWSG
TRYWAPNATSTTSMSGGFTSQTVHRTAPNFKTNQAPKSAPSSGSSVRSNSTQLTSLSS
HSSGSSRSSGSTVVSSLPSSNRTRDWVNQQNLNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKSVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 cgttgctggc aaaaacaaca acaacgacaa cgcaaaatct tcaagtgaca acctgttttc
61 taacatgact gtcactttta agaaagccct cggggcgcgg ccgaaacagc cgcccccggg
121 agaaacaaag caaacatcaa aaccaccaag accaccaaca ccggaattgg tgaagaaaat
181 acctccaccc ccacctaacg gcgagggcga acccgtggtg gtgtataggg taggagaagg
241 ggtgtcagga ctgcctgacc taaccacagt cacacagcct gacgcacaaa acacagctta
301 cagcatcccc ccactcagtc agagagaacc tggcgacgcc aaagaaccgc tgccaggatc
361 aatcatagag atgtgggatg gggagatata ccattacggg ctgtacgtgg aacgaggtca
421 cgtgcttggg gtgcacaaac cacccgctgc gataagcctc gccaaaattg agttaacacc
481 actgtctctg tactggaggg tggtttatac accccagtac ttgatagctc cagacacctt
541 gaagaacctc aatggggagt ccttccctta cacagccttt gacaacaact gctacgcatt
601 ttgctgctgg gttttagacc tcaacgactc ttggctcagc agaaggatga ttcaaaggac
661 caccggtttc ttcaggccat accaggaatg gaacagaaag cccctaccaa ctattgatga
721 acccaaaatc aagaaggctg ctaatgcctt cctttgtgct ctatcctcac tcttcactag
781 gcccatcaag gacattattg ggaaactcaa gcccctaaat attcttaaca tactggcatc
841 ctgtgactgg acctttgcag gcatagtgga atccctcatt cttcttgctg aactctttgg
901 ggtgttctgg acacccccag atgtgtctgc tatgattgct cccttgctcg gtgattacga
961 gatgcagggc cctgaagatc tggccgttga gctcgtacct gtggtgatgg gagggatagg
1021 tttggtgtta ggattcacca aggaaaagat cggcaagatg ctatcgtcag ctgcctctac
1081 attaagagct tgcaaggacc tcggggccta cgggctagaa atactcaaac tagtcatgaa
1141 atggtttttc cccaagaaag aagaggccaa tgagttggct atggtgagag ccattgagga
1201 cgcggtgctg gacctagagg ctatagaaaa caaccacatg accactctcc tcaaagacaa
1261 agacagtttg gcaacttaca tgaggactct tgacctagaa gaggagaagg cgcggaaact
1321 gtccacaaag tctgcgtcac ctgacatcgt gggcacgata aacgcgttgt tagcaaggat
1381 tgcagctgca agatcgctgg tccacaaggc aaaggaggaa ctatccagca gacaacgacc
1441 tgttgtcgta atgatatctg gcaggcctgg catcggaaag acccatcttg ctagagaact
1501 ggccaagaag gttgccgcga cgttggcggg tgaccagagg gtggggttga tacccaggaa
1561 tggtgtggac cactgggacg cctacaaggg tgagagagtg gtcctatggg atgattatgg
1621 aatgagtaac cctattcaag atgcactgag gctccaggag ctggccgaca cttgccctct
1681 aacactaaat tgtgacagga ttgagaacaa agggaaggtg ttcgacagcg acgccatagt
1741 cataacaacc aatcttgcaa accctgcgcc gctggattat gtcaacttcg aagcctgctc
1801 gagacgcata gacttcttgg tgtttgcaga tgctccagac gtcgagaagg cgaagcgcga
1861 ctttcctgga cagccagata tgtggaaaga ccactacagg ccagatttct cacacatcaa
1921 gctccagctg gcccctcaag gaggttttga caagaacggc aacaccccac atggcaaggg
1981 cgtgatgaag tccttgactg tggggtcact gattgccagg gcttctggct tgctccatga
2041 gaggatggac gaatttgagc tccaaggacc aactctgcca accttcaact ttgaccgcaa
2101 caaggtcgct gccttcaggc aattggcagc tgaaaacagg tatggcatga tggatacact
2161 tagagttggc aaccagttaa agagtgtcaa aaccatgagc gagctcaaac aggccataaa
2221 gaacatcact atcaagaagt gccaaatagt ttacaatggg tgcacctaca ccatggaatc
2281 tgacgggcgt ggtgcagtct cagttgaaaa ggtgcaaagt acaacagttc aaaacaataa
2341 tgagcttgtg ggggccctat accatcttag atctgcaaga ataaggtact atgtcaaatg
2401 tttccaagag gcactctatt ctgtgttgca aattgctggt gcagctttcg ttacatcacg
2461 cattataaaa cgcatgaaca tctcaaacct gtggtcaaaa ccgccagttg aagatagtga
2521 tgagactgaa agcaaggaag gctgccctaa acccagagat gatgaatatg aatttgtagt
2581 tgattcaaag gacatcaagg tggaggggaa gaagggcaag aacaaatctg gccgaggaaa
2641 gaaacacaca gctttctcca gcaaaggcct cagtgatgag gagtacgacg agtacaagag
2701 gatcagggag gagcggaatg gtaagtactc aatagaagag tacctacaag acagagacag
2761 gtactatgag gaactcgcca tcgccaaagc cactgaagag gacttttgtg aagaggagga
2821 ggtgagaatt cgccaaagaa tattccgccc aaccagaaaa cagagaaagg aagagagggc
2881 cacactcggg ctagtcacag gatcagagat caggaaaaga aacccagaag acttcaaacc
2941 aaaaggaaaa ctgtgggctg atgataacag aagtgtggac tacaacgaaa gaatagactt
3001 tgaggcaccc ccaagcatct ggtccaggat agtcagcttt ggctcgggct gggggttttg
3061 ggtctctcca agcctcttca taacctcaac acacgtgata ccgaaaggaa tcacagaggc
3121 tttcggggta cccatcaatc aaattcaggt ccacaagtca ggtgagttct gtcgcctgcg
3181 gtttccaaaa ccaatcagaa ctgatgtgag cgggatgatt ctggaagagg gtgcgcccga
3241 aggaactgtc gcaaccatcc ttgtcaagcg gccaacagga gagctgatgc cacttgcagc
3301 cagaatgggg actcatgcca caatgaagat tcagggaaga atggtgggtg gtcagatggg
3361 catgttgctc actggatcaa atgccaaaag catggacctt ggtacaacac ctggtgactg
3421 tggctgccct tacatataca aaaggggcaa tgactttgta gtcattggtg ttcacactgc
3481 ggcagcacgt gggggaaaca cagtcatttg tgccacacag ggcagtgaag gtgaggccac
3541 cttagaaggg ggcgacaaca agggaaccta ctgtggtgcc cccatcctag gacctggcag
3601 tgcaccaaaa ttaagcacca aaacaaaatt ctggagatca tctaacgcgc cacttccacc
3661 gggcacttac gagccagcct atctgggcgg aaaagaccca cgtgtgaagg gaggcccctc
3721 tttacaacaa gttatgaggg accaactcaa accctttact gagcccagag gaaaaccacc
3781 aaacccgagt gtcctggaat cggcaaagaa aaccatcatc aacgtactcg aacaaaccat
3841 tgatccaccc caaaaatgga cctatgccca agcttgtgct tctcttgaca agacaacctc
3901 cagcggacac ccgcaccatg tccgcaagaa tgaattctgg aatggcgagt cttttacagg
3961 aaaattggca gaccaggcat caaaagcaaa tctcatgttc gaggaaggca aacacatgac
4021 accagtctac acagcagcac taaaagatga attggtgaag actgacaaga tttatggcaa
4081 aatcaagaaa aggctcctat ggggctctga cctctccacc atgataaggt gtgctagggc
4141 ctttggtgga ctcatggatg aatttaaagc acactgcatc actcttccaa tcagggttgg
4201 tatgaatatg aatgaagatg ggcccataat ctttgagaaa cactccaggt acagatacca
4261 ctatgatgca gactactctc gttgggactc cacgcaacag agagcagtgc tagcagcagc
4321 acttgagatt atggtgaggt tttctgctga accacaattg gcacaaatag tggctgagga
4381 cttgctttca ccgagtgtag ttgatgtggg tgacttcaaa atcacaatca atgaaggcct
4441 accctctgga gtaccatgca catcacaatg gaactccatt gcccactggc tacttaccct
4501 gtgcgctctg tctgaagtga cggggttggg tcctgacatc atacaagcca attctgttta
4561 ttccttctat ggcgatgatg agattgtgag cacagacata aaattagatc cagaaaaatt
4621 gactacaaag ctcaaggagt atggtctcaa acccacgcgc cctgacaaaa ccgaagggcc
4681 gcttgtgatc agtgaagact tgaacggtct gacattcctt cgtcggacag tcacccgtga
4741 cccagcaggg tggtttggaa agctagacca aagttccatc ctcagacaac tgtactggac
4801 tagaggaccc aatcatgaag accctaatga aaccatgata ccgcatgcac aaaggccagt
4861 gcaactcatg gcactgttgg gtgaatcatc cctgcatggc ccctcttttt acagcaaagt
4921 cagcaaattg gttatatctg aactcaaaga aggaggaatg gatttttacg tgcccaggca
4981 ggagtcaatg ttcaggtgga tgagattctc agatctgagc acgtgggagg gcgatcgcaa
5041 tctggctccc agttttgtga atgaagatgg cgtcgaatga cgctgctcca tctaacgatg
5101 gtgccgccgg cctcgtccca gagatcaaca atgaggcaat ggcgctagag ccagtggcag
5161 gtgcagcaat agcagcacct ctcactggcc agcaaaacat aattgatccc tggattatga
5221 ataattttgt gcaagcacct ggtggtgagt ttacagtgtc acctaggaac tcccctggtg
5281 aagtacttct taatttagaa ttaggtccag aaataaaccc ctatttggct caccttgcta
5341 ggatgtacaa tggttatgca ggtgggtttg aggtgcaggt agtcctggct ggaaatgcgt
5401 ttacagcagg aaaggtgatc tttgcagcta taccccccaa tttcccaatt gacaatctga
5461 gcgcagcaca gattacaatg tgcccgcatg tgattgtgga tgtcagacaa ttggaaccaa
5521 tcaaccttcc gatgcctgat gtccgtaata atttctttca ttataatcaa gggtctgatt
5581 cgaggttgcg tttaattgca atgttataca cacctcttag ggcaaataat tcaggagatg
5641 atgttttcac tgtgtcttgt agggtattaa ctaggcctag ccctgatttc tcattcaatt
5701 ttctcgttcc acctactgtg gaatcaaaga caaagccttt caccctcccc attttgacta
5761 tttctgaaat gtctaattct agatttccag tgccaattga ctctctgcac actagcccga
5821 ctgagaacat tgttgtccag tgccaaaatg ggcgcgtcac ccttgacggt gagttaatgg
5881 gcaccactca actcttgccg agtcaaatat gtgctttcag gggcacgctc accagatcaa
5941 caagcagggc cggtgaccaa gctgacacgg caacccctag attgttcaat tattattggc
6001 acatacaatt ggataaccta aatggaaccc cctatgaccc tgcagaagac ataccagccc
6061 ctttgggaac accagacttc cggggcaagg tctttggcgt agctagccag agaaaccctg
6121 acagcacaac aagagcacat gaagcaaaag tggacacaac atctggtcgc ttcgccccga
6181 aattgggttc cctagaaata tccactgaat ccagtgactt tgactcaaac caaccaacaa
6241 ggttcacccc agttggcatt ggggttgaca atgaggcaga ttttcagcaa tggtccttac
6301 ctgactactc cggtcagttc actcataaca tgaacttagc cccagctgtc gcccccaatt
6361 tccctggtga gcagcttctt ttcttccgct cacagttgcc atcttctggt gggcggtcta
6421 acgggattct ggactgcctg gttccccagg aatgggttca acacttctac caggaatcag
6481 cccctgccca aacacaggta gccctggtta gatatgttaa ccctgacact ggtagagtgc
6541 tatttgaggc caagctacac aaattgggct tcatgactat agctaagaat ggtgactctc
6601 caataactgt ccctccaaat gggtacttta ggtttgaatc ttgggtgaac cccttttata
6661 cacttgcccc catgggaact ggaaatgggc gtagaaggat tcaataatgg ctggagcttt
6721 tatagcagga ttggctggtg acatgctcac aaatactgta ggatctttag ttaatgcagg
6781 ggctagtgcc atcaatcaaa aagttgattt tgagaataat aaatacttac aaaatgcatc
6841 ttttgctcat gataaggaga tgttaaatgc acaaattgag gcaacaaaga ggctacaggc
6901 tgatatgatt gctatcaaac aaggggtctt gaccgctggc ggcttctccc ccactgatgc
6961 agcccgtggg gcaatcaatg cccccatgac aaaagttttg gattggagtg gaacgaggta
7021 ctgggcacca aacgccacct ccacaacctc aatgtcaggt ggcttcacaa gccaaactgt
7081 gcacagaacc gcaccaaatt ttaagacgaa ccaggccccc aagtccgcac ccagcagtgg
7141 gtcttcagtg aggtcaaatt caacccaact cactagcttg agttcacact cctccgggtc
7201 gtctcgatcc agcgggtcta cggttgtcag ctcattgcca tcttccaaca ggactaggga
7261 ttgggtcaat caacagaatc tcaatttgga accacacatg cccggatccc ttaggacagc
7321 ttttgtcact ccaccatcta gtacagcctc tagttcaggc acggtctcaa ccgtgcccaa
7381 aagtgttttg gactcctgga catctgcgtt taacacgcgc agacaaccgc tattcgcaca
7441 ccttcgtaga aggggggagt caaatgttta gtgaaaagat tattttaaat ttaacttgga
7501 tt
//