Typing tool
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Typing tool
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Complete norovirus genomes
| MW305728 | GII.3 | |
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| GII.P3 |
ORF1: 1..5077
ORF2: 5058..6704
ORF3: 6704..7468
LOCUS MW305728 7505 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate CHDC4031 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305728
VERSION MW305728.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7505)
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JOURNAL Unpublished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 7505)
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..7505
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="CHDC4031"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="18-Nov-1988"
/note="genotype: GII.3[GII.P3]"
gene <1..5077
/gene="ORF1"
CDS <1..5077
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="QPJ59520.1"
/translation="VAGKNNNNDKEKSSSDSLFSNMTVTFKKALGARPKQPPPGETKQ
TQKPPRPPTPELVKRIPPPPPNGEDEPKVVYRVGEGVSGLPDLTTVAQPDAQNTAYSV
PPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHILGVHKPPAAISLAKIELTP
LSLYWRVVYTPQYLIAPDTLKNLSGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQ
RTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDIIGKLKPMNILN
ILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAVELVPV
VMGGVGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANEL
AMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIV
GTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELAKKVASTL
SGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCPLTLNCDR
IENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEKAKRDFPGQ
PDMWKDHYRPDFTHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIARASGLLHERM
DEFELQGPNLPTFNFDRNKIAAFRQLAAENKYGMVDTLRVGNQLKGVKTMDELKQAIK
NITIKKCQIVYNGCTYTMESDGRGKVSVDKVKNATVQTNNELSGALHHLRSARIRYYV
KCFQEAVYSLLQIAGAAFVTSRIVRRMNISSLWSKPPVEESDESEDKEGCPKPRDEDD
LTIDSKDIKVEGKKGKNKSGRGKKHTAFSAKGLSDEEYDEYKRIREERNGKYSIEEYL
QDRDRYYEELAIAKATEENFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKR
NPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSPSLFITSTH
VIPKGITEAFGVPMNQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEGTVASILIK
RTTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYK
RGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGNAPKLS
TKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPNPS
VLESAKKTIINVLEQVIDPPQKWSYAQACASLDKSTSSGHPHHVRKNDYWSGESFTGK
LADQASKANLMYEEGKHMPPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTMIRCAR
AFGGLMDELKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVL
AAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAH
WLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTR
PDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRGPNHEDPSET
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="QPJ59521.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALDPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKVIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPINLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFTLPILTISEMSNSRFPVPIDSLHTSPTESIVVQCQNGRVTLDGELMGTT
QLLPNQICAFRGTLTRSTNRASDQADTATPRLFNHHWHIQLDNLNGTPYDPAEDIPAP
LGTPDFRGKVFGVASQRNPDSTTRAHEAKVDTTSGRFTPKLGSLEITTESDDFDPNQS
TKFTPVGIGVDNEADFQQWSLPDYSGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
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="QPJ59522.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGASAINQKVDFENNKYLQNA
SFNHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWSG
TRYWAPNATSTTSTSGGFTSQVVHRTTPNFRANQAPKLTPSSGSSVRSSSTQLTSLSS
HSSGSSRSSGSTVVSSLPSSSRTRDWVNQQNLNLEPHMPGSLRTAFVTPPSSTASSSD
TVSTVPKNVLDSWTSAFNTHRQPLFAYLRRRGESNV"
ORIGIN
1 cgttgctggc aaaaacaaca acaacgacaa ggaaaaatct tcaagtgaca gcttgttttc
61 taacatgact gttactttta agaaagccct cggggcgcgg cctaaacaac cgcccccggg
121 agaaacaaaa caaacacaaa aaccaccaag accaccaaca ccggaattgg tgaaaagaat
181 acccccgccc ccacccaacg gcgaggatga accaaaggtg gtatacaggg tgggagaagg
241 tgtgtccggg ctgcccgact taacaaccgt ggcgcagcct gacgcacaaa acacagctta
301 tagtgtgccc ccacttagcc aaagagaggt aggcgaagct aaggaaccgc tacctggatc
361 cattctggaa atgtgggatg gtgagatcta ccactatggg ctgtacgttg agcgggggca
421 catacttggg gtgcataaac cacctgctgc aataagcctc gccaaaattg aattaacacc
481 actgtctctc tactggagag tggtttacac tccccagtac ttgatagccc cagacactct
541 gaagaacttg agtggagaat cattcccata cacggccttt gacaacaact gttacgcctt
601 ctgttgttgg gtcttagatc tcaatgactc ttggcttagc aggagaatga ttcaaaggac
661 aaccggcttc ttcaggccgt accaagattg gaatagaaaa cccctgccaa ccatggatga
721 gccaaaaatc aagaaggccg cgaatgctgt cctgtgcgct ctctcctcac tcttcactag
781 acccatcaag gacattattg gaaagctcaa accaatgaac atcctcaata tattagcaac
841 ttgtgactgg acttttgcag gcatagtgga atcccttatt cttcttgctg aactctttgg
901 ggtgttctgg acacccccag atgtgtctgc gatgattgct cccttactcg gtgactacga
961 gatgcaaggc cctgaagacc tggccgtgga acttgtgccc gtggtaatgg gaggggtagg
1021 tttggtgttg ggattcacca aggagaagat cggcaagatg ctttcatcag ctgcatccac
1081 gcttagggcc tgcaaagatc taggagccta tggattggag atacttaaat tggtcatgaa
1141 gtggttcttc cctaagaaag aagaggctaa cgagttagcc atggtaaggg ccatcgagga
1201 tgcagtcctg gacttagagg caatagaaaa caaccacatg accactcttc tcaaggacaa
1261 agatagtctg gccacataca tgaggactct tgacctggag gaagaaaaag caaggaaact
1321 gtccaccaaa tccgcatcac ctgacattgt gggcacaata aatgcattac tggcaaggat
1381 tgcagccgct aggtcactag tccacaaggc taaggaggag ctttcaagca gacagaggcc
1441 tgtcgtcgtg atgatatctg gcagaccagg catagggaag acccatctcg ccagagagct
1501 agccaagaaa gttgcatcaa cactgtcggg cgaccaaagg attggactgg tgcctagaaa
1561 tggtgtagac cactgggatg cctacaaggg ggaaagagtg gtgctatggg atgactatgg
1621 catgagcaac cccatacagg atgcactgag acttcaagag ttggctgata cctgtcctct
1681 aactctaaac tgtgatagaa ttgaaaacaa gggaaaagtg tttgacagtg atgccataat
1741 cataacaacc aaccttgcaa acccagcacc gctggattat gtcaattttg aggcttgctc
1801 cagacgcata gacttcttag tgtatgcaga tgcacctgac attgagaaag ccaagcgtga
1861 cttccctggc caaccagata tgtggaaaga tcactacaga ccagacttta cacacatcaa
1921 acttcagcta gcaccacagg gaggttttga taagaatggc aacaccccac atggtaaagg
1981 tgtagtgaag tctctgacta ttgggtcatt gatcgccagg gcttctggct tgctccacga
2041 gagaatggat gaattcgagc tccaaggccc taacctacca accttcaatt tcgaccgcaa
2101 caagatcgcc gccttcaggc aattggcagc tgaaaacaaa tatggtatgg tagacacact
2161 gagggtcggt aatcaactga agggtgtcaa gaccatggac gagctcaaac aggctataaa
2221 gaatatcacc attaagaagt gccaaatagt gtacaatggg tgtacttaca caatggagtc
2281 tgatggaaga ggcaaggttt cagttgacaa ggtgaaaaat gcaacagtcc aaactaataa
2341 tgagctttca ggagcgctgc accacttaag atctgcaaga ataagatatt atgtcaaatg
2401 tttccaggaa gctgtctatt ctttgctaca aattgctggt gcggcctttg tcacctcacg
2461 cattgtgagg cgcatgaaca tctcaagcct ctggtcgaag ccacctgttg aagagagtga
2521 tgaatctgaa gacaaagaag ggtgccccaa gcccagagat gaagatgatc tcactatcga
2581 ttccaaggac attaaagtgg aaggaaagaa aggcaagaac aagtccggcc gaggtaagaa
2641 acacacagcc ttctcagcta agggcctcag tgatgaagag tacgatgagt acaagagaat
2701 cagagaagaa aggaatggca aatactcaat agaggagtac ctccaagaca gggacaggta
2761 ctatgaagaa cttgccattg ctaaggccac tgaagagaac ttctgtgaag aggaggagat
2821 caaaatccgt cagagaatct tccgccccac cagaaagcag cggaaagagg aaagggctac
2881 acttgggctc gtcacagggt cggagatcag aaagaggaat ccagatgact tcaaaccaaa
2941 aggaaaattg tgggctgatg ataacaggag tgtggactac aatgagagga tagattttga
3001 agcaccccct agcgtttggt caaggatagt caactttggc acaggctggg gattctgggt
3061 ttctccaagt ctcttcataa cctcgacaca cgtgatacca aaaggaatca cggaggcatt
3121 tggggtgccc atgaaccaaa tccaaattca taaatcagga gaattctgcc gcttacggtt
3181 tccaaaacca atcaggccag acgtaagtgg gatgattttg gaagagggtg cccctgaagg
3241 aactgttgcg tccatcctca tcaaaagaac aacaggggag ttgatgcctc ttgcagccag
3301 aatgggaacc cacgccacaa tgaaaatcca aggaagaacg gtgggtggcc agatgggcat
3361 gttactcacc ggttcaaatg ccaaaagcat ggacctaggc acaacaccag gtgactgtgg
3421 gtgcccctac atatacaaga ggggcaatga cttcgtggtc attggcgtgc acactgcagc
3481 agcacgtgga ggaaacacag ttatatgtgc cacacaagga agcgaaggtg aagccactct
3541 tgagggaggt gacaacaagg gcacctattg tggagccccc attttaggac ctggcaatgc
3601 accaaaattg agcacaaaaa caaaattctg gagatcttcc aacgcaccgc tcccgccagg
3661 cacctatgaa ccagcatacc tgggtgggaa agatccacgt gtgaagggtg gtccgtctct
3721 gcagcaggtc atgagagacc aacttaaacc tttcacagag cccagaggga aaccaccaaa
3781 cccaagtgtc ctagaatcag caaagaaaac tatcatcaat gttctagagc aggtcattga
3841 ccccccccag aagtggtcct atgcccaagc ttgtgcatcc cttgacaaat caacctccag
3901 tggacacccg caccacgttc ggaagaatga ttactggagt ggtgaatcct tcacaggaaa
3961 acttgcagac caggcatcaa aagcaaatct catgtacgaa gagggcaaac acatgccacc
4021 agtttacacc gcagcgctca aggacgagct ggtgaaaact gacaaaatct atggcaaaat
4081 taagaaaagg ctcctgtggg gttctgacct ctccaccatg attcgatgcg ccagagcatt
4141 tggtggcctc atggatgaac tcaaagcaaa ttgtatcaca cttcctatca gagttggcat
4201 gaacatgaat gaagatggtc ccataatatt tgagaaacat tccagataca gataccacta
4261 tgatgcagat tactcccgct gggattccac gcagcagcgg gcagtgttgg cagcagcact
4321 tgaaatcatg gtgaggttct ctgctgaacc acagttagca caaatagtag ctgaagatct
4381 gctagcacca agtgtggttg atgtgggtga cttcaagatc accattaatg aaggcctacc
4441 ttctggtgtg ccttgcacct cacagtggaa ctccattgcc cactggttgc ttactctgtg
4501 tgccctttct gaagtgacag gactaggccc cgacatcata caagctaatt ccatgtactc
4561 tttctatggt gatgatgaga ttgtgagcac tgacataaaa ttggacccag agaaactgac
4621 tgcaaaactc aaagagtacg gcctcaaacc cactcgcccc gacaaaaccg aagggccgct
4681 ggtgatcagt gaagacttga atggtttgac gttcctccgc cgaacggtca cccgtgaccc
4741 agcaggttgg tttggaaagc tggatcaaaa ttccatcctc aggcagctat actggacaag
4801 aggacccaac catgaagacc ccagtgaaac catgatacca catgcgcaga gacccgtgca
4861 gctcatggca ctgctgggag aatcctccct acatggaccc tcattttaca gcaaggttag
4921 caagctggtt atatctgaac ttaaggaggg aggaatggat ttttatgtgc ccagacaaga
4981 gtcaatgttc aggtggatga ggttctcaga tctaagcaca tgggagggcg atcgcaatct
5041 ggctcccagt tttgtgaatg aagatggcgt cgaatgacgc tgctccatct aatgatggtg
5101 ccgccggcct cgtcccagag atcaacaatg aggcaatggc gctagatcca gtggcgggtg
5161 cagcgatagc agcacccctc actggccagc aaaatataat tgatccctgg attatgaata
5221 actttgtgca agcacctggt ggtgagttta cagtgtcacc taggaattcc cctggtgaag
5281 tgcttcttaa tttggaatta ggtccagaaa taaatcccta tttggctcat cttgctagaa
5341 tgtataatgg ttatgcaggt gggtttgaag tgcaagtggt cctggctgga aatgcgttta
5401 cagcaggaaa ggtgatcttt gcagctatac cccccaactt ccctattgac aatctgagcg
5461 cagcacagat cacaatgtgc ccgcacgtga ttgtggatgt caggcagttg gaaccaatca
5521 atcttccgat gcctgatgtc cgcaacaatt tctttcatta taatcaaggg tctgattcaa
5581 gattacgttt aattgcaatg ctgtatacac ctcttagggc aaataattct ggagatgatg
5641 ttttcactgt gtcttgtagg gtgttaacta ggcctagccc tgatttctca ttcaattttc
5701 ttgtcccacc cactgtggaa tcaaagacaa aaccttttac cctccccatt ttaaccatct
5761 ctgaaatgtc taattccagg tttccggtgc caattgactc tctgcacacc agcccaactg
5821 agagtatcgt tgtccagtgt caaaatgggc gcgtcactct tgacggtgag ttaatgggca
5881 ccacccaact cttaccgaac caaatatgtg ctttcagggg cacacttact aggtcaacaa
5941 acagggccag tgatcaagcc gacacagcaa cccccaggct attcaaccat cattggcaca
6001 tacaattgga taatctaaat ggaaccccct acgaccctgc agaggacata ccagctcctt
6061 tgggcacacc agacttccgg ggcaaagtct ttggcgtagc cagccagaga aaccccgaca
6121 gcacaacaag ggcacatgaa gcaaaagtgg acacaacatc tggccgcttc accccaaaat
6181 tgggctccct agaaataacc actgaatctg atgactttga cccaaaccag tcaacaaaat
6241 tcaccccagt tggcattgga gttgacaatg aggcagattt tcagcaatgg tccttacctg
6301 actattccgg tcagtttact cataacatga acttagcccc agctgtcgcc cccaattttc
6361 ctggtgaaca gcttcttttc ttccgatcac agctgccatc ttctggtggg cggtctaacg
6421 ggattctaga ctgcctggtc ccccaggaat gggttcaaca cttctaccag gaatcagccc
6481 ccgcccaaac acaggtggcc ctggttaggt atgtcaaccc tgacactggt agagtgctat
6541 ttgaggccaa gctacacaaa ttgggtttta tgactatagc aaagaatggt gactccccaa
6601 taactgtccc tccaaatggg tattttagat ttgaatcttg ggttaacccc ttttacacac
6661 ttgcccccat gggaactgga aacgggcgta gaaggattca ataatggctg gagcctttat
6721 agcaggattg gctggtgaca tgctcacaaa cactgtgggg tctttggtta atgcaggggc
6781 tagtgctatt aatcaaaaag ttgattttga aaataataaa tatttgcaaa atgcttcttt
6841 taatcatgat aaggagatgt taaatgcaca aattgaggca acaaagaggc tgcaggctga
6901 catgattgct atcaaacaag gggtcttgac cgctggcggc ttttccccca ctgatgcagc
6961 acgtggggca attaatgccc caatgacaaa agttttggat tggagtggaa caaggtactg
7021 ggcaccaaat gccacctcca caacttcaac gtcaggtggc ttcacaagcc aagttgtgca
7081 cagaaccaca ccaaatttca gagcgaacca ggcccccaaa ctcacaccca gcagtgggtc
7141 ttcagtgaga tcaagctcaa cccaactcac tagcttgagc tcacactcat ccgggtcgtc
7201 ccgatctagc gggtctacgg ttgtcagctc gctgccgtcc tccagtagga ctagggactg
7261 ggtcaatcaa cagaatctca atttggaacc acacatgcct ggatctctca ggacagcttt
7321 tgtcactcca ccatctagca cagcctctag ttcagacacg gtctcaaccg tgcccaaaaa
7381 tgttttggac tcctggacat ctgcgtttaa cacgcacaga cagccgctat ttgcatacct
7441 tcgtagaagg ggggagtcaa atgtttagtg aaaagattat tcctaaattt aatttagaat
7501 ctttt
//