Typing tool
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Typing tool
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Complete norovirus genomes
| MW305725 | GII.3 | |
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| GII.P3 |
ORF1: 1..5077
ORF2: 5058..6704
ORF3: 6704..7468
LOCUS MW305725 7499 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate CHDC6261 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305725
VERSION MW305725.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7499)
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JOURNAL Unpublished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 7499)
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..7499
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="CHDC6261"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="03-Dec-1990"
/note="genotype: GII.3[GII.P3]"
gene <1..5077
/gene="ORF1"
CDS <1..5077
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="QPJ59511.1"
/translation="VAGKNINNDKEKSSSDSLFSNMTVTFKKALGARPKQPPPGETKQ
TQKPPRPPTPELVKRIPPPPPNGEDEPKVVYRVGEGVSGLPDLTTVARPDAQNTAYSV
PPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHILGVHKPPAAISLAKIELTP
LSLYWRVVYTPQYLIAPDTLKNLSGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQ
RTTGFYRPYQDWNRKPLPTMDEPKIKKVANAVLCALSSLFTRPIKDIIGKLKPMNILN
ILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAVELVPV
VMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANEL
AMVRAIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIV
GTINALLARIAAARSLVHKAREELSSRQRPVVVMISGRPGIGKTHLARELAKKVASTL
SGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCPLTLNCDR
IENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEKAKRDFPGQ
PDMWKDHYRPDFTHIKLQLAPQGGFDKNGNTPHGKGVMKSLTIGSLIARTSGLLHERM
DEFELQGPNLPTFNFDRNKIAAFRQLAAENKYGMVDTLRVGNQLKSVKTMDELKQAIK
NITIKKCQIVYNGCTYTMESDGRGRVSVDKVQNTTVQTNNELSGALHHLRSARIRYYV
KCFQEAVYSLLQIAGAAFVTLRIVRRMNISSLWSKPPVEESDEPEDKEGCPKPRDEDD
LTIDSKDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYL
QDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKR
NPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSPSLFITSTH
VIPKGITEAFGVPMNQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEGTVASILIK
RTTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYK
RGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGNAPKLS
TKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPNPS
VLESAKKTIINVLEQVIDPPQKWSYAQACASLDKSTSSGYPHHVRKNDYWSGESFIGK
LADQASKANLMYEEGKHMSPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTMIRCAR
AFGGLMDELKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVL
AAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAH
WLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYGLRPTR
PDKTEGPLVVSEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTRGPNHEDPSET
MIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQESMFRWMRF
SDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..967
/gene="ORF1"
/product="p48"
mat_peptide 968..2065
/gene="ORF1"
/product="NTPase"
mat_peptide 2066..2602
/gene="ORF1"
/product="p22"
mat_peptide 2603..3001
/gene="ORF1"
/product="VPg"
mat_peptide 3002..3544
/gene="ORF1"
/product="Pro"
mat_peptide 3545..5074
/gene="ORF1"
/product="RdRp"
gene 5058..6704
/gene="ORF2"
CDS 5058..6704
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59512.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKVIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPINLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFTLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGTLTRSTSRASDQADTATPRLFNYYWHIQLNNLNGTPYDPAEDIPAP
LGTPDFRGKVFGVASQRNPDSTTRAHEAKVDTTSGRFAPKLGSLEISTETDDFNQNQP
TRFTPVGIGVDNEADFQQWSLPDYSGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSSGILDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
gene 6704..7468
/gene="ORF3"
CDS 6704..7468
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59513.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGAGVINQKVDFENNKYLQNA
SFNHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPITKVLDWSG
TRYWAPNATSTTSMSGGFTGQTVHKTTPNFKTNQAPKSTPSSGSSVRSNSTQLTSLSS
YSSGSSRSSGSTIVSSLPSSSRTRDWVNQQNLNLEPHMPGSLRTAFVTPPSSTASSLD
TVSTVPKSVLDSWSSAFNTRRQPLFAHLRRRGESNA"
ORIGIN
1 cgttgctggc aaaaacatca acaacgacaa ggaaaagtct tcaagtgaca gcttgttttc
61 aaacatgact gttactttta agaaagccct cggggcgcga cctaaacaac cgcccccggg
121 ggaaacaaaa caaacacaaa aaccaccaag accaccaaca ccggaattgg tgaaaagaat
181 acccccaccc ccacccaacg gcgaggatga acctaaggtg gtgtacaggg tgggagaggg
241 tgtgtccggg ttgcccgact taacaaccgt ggcgcggcct gacgcacaaa acacagctta
301 tagtgttccc ccacttagcc agagggaggt aggcgaagct aaagagccgc tacctggatc
361 cattctggaa atgtgggatg gtgagatcta ccactatggg ctatacgttg agcggggaca
421 catacttggg gtgcacaaac cacctgctgc aataagcctc gccaaaatcg aattaacacc
481 actgtctctc tactggagag tggtttacac tccccagtac ttgatagccc cagacactct
541 gaagaactta agtggagaat cattcccgta tacagccttt gataacaact gttatgcctt
601 ctgttgttgg gtcttagatc tcaatgactc ttggcttagc aggagaatga ttcaaaggac
661 aaccggcttc tacaggccat atcaagattg gaatagaaag cccttgccaa ccatggatga
721 gccaaaaatc aagaaggtcg cgaatgctgt tctgtgcgct ctctcttcac tcttcactag
781 acccatcaag gacattattg gaaaactcaa accaatgaac atcctcaaca tattagcaac
841 ttgtgactgg acttttgcag gcatagtgga atcccttatt cttcttgctg aactctttgg
901 ggtgttctgg acacccccag atgtgtctgc gatgattgct cccttactcg gtgactacga
961 gatgcaaggc cccgaagacc tggccgtgga acttgtaccc gtggtgatgg gagggatagg
1021 tttggtgtta ggattcacca aggagaagat cggcaagatg ctttcatcag ctgcatccac
1081 gcttagggcc tgcaaagacc taggagccta tggattggag atacttaaat tagttatgaa
1141 gtggttcttc cctaagaaag aagaggctaa cgagttagcc atggtaaggg ccatcgagga
1201 tgcagtcttg gacttggagg caatagaaaa caaccacatg accgctctcc tcaaagacaa
1261 agacagtctg gctacataca tgaggactct tgacttggag gaagagaaag caaggaaatt
1321 gtccaccaaa tctgcatcgc ctgacattgt aggcacaata aatgcattat tggcaaggat
1381 tgcagccgcc aggtcactag tccataaggc tagagaggag ctttcaagca gacagaggcc
1441 tgtcgttgtg atgatatcag gcagaccagg cataggaaag acccatctcg ccagagagct
1501 agccaagaaa gttgcatcaa cactgtcggg cgaccaaaga attggactgg tgcctagaaa
1561 cggtgtagac cactgggatg cctacaaggg ggaaagagtg gtgctatggg atgattatgg
1621 catgagcaac cccatacagg atgcactgag acttcaagag ttggctgata cctgtcctct
1681 aactctaaac tgtgatagaa ttgaaaacaa gggaaaggtg ttcgacagtg atgccataat
1741 cataacaacc aaccttgcaa acccagcacc actggattat gtcaattttg aggcttgctc
1801 cagacgcata gacttcttag tgtatgcaga cgcacctgac attgagaagg ccaagcgcga
1861 cttccctggc caaccagata tgtggaaaga tcattacaga ccagatttta cacacatcaa
1921 acttcaacta gcaccacagg gaggttttga taagaatggt aacaccccac atggtaaagg
1981 tgtaatgaag tctctgacga ttgggtcatt gatcgccagg acttctggct tgctccacga
2041 gagaatggat gaattcgagc tccaaggccc taacctacca actttcaatt tcgatcgcaa
2101 caagatcgct gccttcaggc aattggcagc tgaaaacaaa tatggtatgg tagacacgct
2161 gagggtcggt aaccaactta aaagtgtcaa gaccatggat gagctcaagc aggctataaa
2221 gaatatcacc attaagaagt gccaaatagt gtacaatggg tgtacctaca ccatggagtc
2281 cgatggaaga ggcagggtct cagttgacaa ggtgcaaaat acaacagttc aaactaataa
2341 tgagctttca ggagcgctac accacttaag atctgcaaga ataagatatt atgtcaaatg
2401 tttccaggaa gctgtctatt ctttgctaca aattgctggt gcagcctttg tcaccttacg
2461 cattgtgagg cgcatgaaca tctcaagcct ctggtcgaag ccacctgttg aggagagtga
2521 tgaacctgaa gacaaagaag ggtgccccaa acccagagat gaagatgatc tcaccatcga
2581 ttccaaggac attaaagtgg aaggaaagaa gggcaagaac aaatccggcc gaggtaagaa
2641 acacacagcc ttctcatcta agggcctcag tgatgaagag tacgatgagt ataaaagaat
2701 cagggaagaa aggaatggca aatactcaat agaggagtac ctccaggaca gggacaggta
2761 ctatgaagaa cttgccatcg ctaaggccac tgaagaggac ttctgtgaag aggaggagat
2821 caaaattcgt cagagaatct tccgtcccac caggaagcag cggaaagagg aaagggctac
2881 acttgggctc gtcacagggt cagagatcag gaagaggaat ccagatgact tcaaaccaaa
2941 agggaaattg tgggctgatg ataacaggag tgtggactac aatgagagga tagattttga
3001 agcaccccct agcgtttggt caagaatagt caactttggc acaggctggg gattctgggt
3061 ttctcctagt ctcttcataa cctcaacaca cgtgatacca aaaggaatca cggaggcctt
3121 tggagtaccc atgaaccaaa tccaaattca taaatcaggg gaattctgcc gcttaaggtt
3181 tccaaaacca atcaggccag acgtgagtgg gatgatcttg gaagagggtg cccccgaagg
3241 aactgttgcg tccatcctca tcaaaagaac aacaggggag ctgatgcctc ttgcagccag
3301 aatgggaacc cacgccacaa tgaaaattca aggaagaacg gtgggtggcc agatgggcat
3361 gttgctcacc ggttcaaatg ccaaaagcat ggacctaggc acaacaccag gtgactgtgg
3421 gtgcccctac atatacaaga ggggcaatga cttcgtggtc attggcgtgc acactgcagc
3481 agcacgtgga gggaacacag tcatatgtgc cacacaagga agcgagggtg aagccactct
3541 tgaggggggt gacaacaaag gcacctattg tggagccccc attttggggc ctggcaatgc
3601 accaaaattg agcacaaaaa caaaattctg gagatcttcc aacgcaccgc taccgccagg
3661 cacctatgaa ccagcatacc tgggtgggaa ggatccacgt gtgaagggtg gtccatcttt
3721 gcaacaggtc atgagggatc agcttaaacc tttcacggaa cccagaggga aaccaccaaa
3781 cccaagtgtc ctagaatcag caaagaaaac tatcatcaat gttctagaac aggtcattga
3841 ccccccccag aagtggtctt atgcccaagc ttgtgcatct cttgacaaat caacctccag
3901 tggataccca caccacgttc ggaagaatga ctactggagc ggtgaatcct tcataggaaa
3961 acttgcagac caggcatcaa aagcaaatct catgtacgag gaaggcaaac acatgtcgcc
4021 agtttacacc gcagcgctca aggacgagct ggtgaaaact gacaaaattt atggtaaaat
4081 caagaaaagg ctcctatggg gttctgacct ctccaccatg attcgatgcg ccagagcatt
4141 tggtggcctc atggatgaac tcaaagcaaa ttgtatcaca cttcctatca gggttggcat
4201 gaacatgaat gaagatggcc ccataatatt tgagaaacat tccaggtaca gataccacta
4261 tgatgcagat tactctcgct gggattccac gcagcagcgg gcagtgttgg cagcagcact
4321 agaaatcatg gtgaggttct ctgctgaacc acagttagca caaatagttg ctgaggatct
4381 gctggcacca agtgtggttg atgtgggtga ctttaaaatt accattaatg aaggcctacc
4441 ttctggtgtg ccttgcacct cacaatggaa ctccattgcc cactggttgc tcactctatg
4501 tgccctttct gaagtgacag gactaggccc cgacatcata caagccaatt ccatgtactc
4561 tttctatggt gatgatgaga ttgtaagcac tgatataaaa ttggacccag agaaactgac
4621 tgcaaaactc aaagagtatg gcctcagacc cactcgcccc gacaaaactg aagggccgct
4681 ggtggtcagt gaagatttgg atgggttgac gttcctccgc cgaacagtca cccgtgaccc
4741 agcaggttgg tttggaaagc tggatcaaag ttccatcctc aggcagctat actggacaag
4801 aggacccaac catgaagatc ccagtgaaac catgatacca catgcgcaaa gacccgtgca
4861 gctcatggca ctgctgggag agtcctccct acatggaccc tcattttaca gcaaggttag
4921 caagctggtt atatctgaac ttaaggaggg aggaatggat ttttatgtgc ccagacaaga
4981 gtcaatgttc agatggatga ggttctcaga tctaagcaca tgggagggcg atcgcaatct
5041 ggctcccagt tttgtgaatg aagatggcgt cgaatgacgc tgctccatct aacgatggtg
5101 ccgccggcct cgtaccagag atcaataatg aggcaatggc gctagagcca gtggcgggtg
5161 cagcgatagc agcacccctc actggtcagc aaaatataat agatccctgg attatgaata
5221 attttgtgca agcacctggt ggtgagttta cagtgtcacc taggaactcc cctggtgaag
5281 tgcttcttaa cttagagtta ggcccagaaa taaaccccta tttggcacac cttgctagga
5341 tgtacaatgg ttatgcaggt ggatttgaag tgcaggttgt cctggctgga aatgcgttta
5401 cagcagggaa agtgatcttt gcagctatac cccctaattt tccaattgat aatctgagtg
5461 cagcacagat tacaatgtgt ccacatgtga ttgtggacgt caggcaattg gaaccaatca
5521 atctcccgat gcctgatgtc cgcaacaatt tcttccatta caatcaaggg tctgattcga
5581 ggttacgctt aattgcaatg ctgtacacac ctcttagggc aaataattct ggagatgatg
5641 ttttcactgt gtcctgcagg gtgttaacta ggcctagccc tgatttctca ttcaatttcc
5701 ttgtcccgcc cactgtggag tcaaagacaa aacccttcac ccttcccatt ctaactattt
5761 ctgaaatgtc taattccagg tttccagtgc caattgactc tctgcacacc agcccgactg
5821 aaaatattgt tgtccagtgc cagaatgggc gcgtcactct tgacggcgag ctaatgggca
5881 ccacccaact cttgccgagt caaatatgcg ctttcagggg cactctcacc agatcaacaa
5941 gcagggccag tgaccaagct gacacagcaa cccctaggct tttcaactat tattggcata
6001 tacaattgaa taacctaaat ggaaccccct acgaccctgc agaggacata ccagcccctt
6061 tggggacgcc agactttcgg ggcaaggtct ttggcgtagc cagccagaga aaccctgata
6121 gcacaacaag agcacatgaa gcaaaagtgg acacaacatc tggccgtttc gccccaaagt
6181 tgggctccct ggaaatatcc actgaaaccg acgactttaa ccaaaaccaa ccaacaagat
6241 ttaccccagt tggcattggg gttgataatg aggcagattt tcaacaatgg tccttgcctg
6301 actactccgg tcagttcacc cacaacatga acttggcccc agctgtcgca cccaacttcc
6361 ccggtgaaca gcttctcttc ttccgctcac agctgccatc ctctggtggg cggtccagtg
6421 ggattctaga ctgcctggtc ccccaagaat gggttcaaca cttctaccaa gaatcagccc
6481 ctgcgcaaac acaggtggct ctggtcaggt atgtcaaccc tgatactggt agagtgttat
6541 ttgaggccaa gctacataaa ttaggtttca tgaccatagc taagaatggt gactctccaa
6601 taactgtccc tccaaatgga tactttaggt ttgaatcttg ggtgaacccc ttttatacac
6661 tagcccccat gggaactgga aatgggcgta gaaggattca ataatggctg gagcctttat
6721 agcaggattg gctggtgaca tgctcacaaa tactgtgggg tctttagtta atgcaggggc
6781 tggtgttatt aatcaaaaag ttgattttga aaataataaa tatttacaaa atgcatcctt
6841 taatcatgat aaggagatgt taaatgcaca aattgaggca acaaagaggc tgcaggctga
6901 tatgattgct atcaaacaag gggttttaac cgctggcggt ttttccccca ctgatgcagc
6961 ccgtggggcg attaacgctc ccataacaaa agtcctggat tggagtggaa ctagatactg
7021 ggcaccaaac gccacctcca caacctctat gtcaggtggc ttcacaggtc aaactgtgca
7081 caaaaccaca ccaaatttta aaacgaacca agcccccaag tccacaccca gtagtgggtc
7141 ttcagtgaga tcaaattcaa cccaactcac tagcttgagc tcatactcat ctgggtcgtc
7201 tcgatctagc ggatccacga ttgtcagctc attgccatct tccagcagga ccagggattg
7261 ggtcaaccaa cagaatctta atttggaacc acacatgcct gggtctctca ggacagcttt
7321 tgtcactcca ccatctagta cagcctctag cttagacacg gtctcaaccg tgcctaaaag
7381 tgttttggac tcctggtcat ctgcgtttaa tacgcgcaga cagccgctat tcgcacacct
7441 tcgtagaagg ggggagtcaa atgcttagtg aaaagattat tttaaattta gtttagatt
//