Typing tool
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Typing tool
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Complete norovirus genomes
| MW305575 | GII.3 | |
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| GII.P41 |
ORF1: 1..5075
ORF2: 5056..6702
ORF3: 6702..7466
LOCUS MW305575 7518 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate HK54 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MW305575
VERSION MW305575.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7518)
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JOURNAL Unpublished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 7518)
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..7518
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="HK54"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Hong Kong"
/collection_date="12-Dec-1977"
/note="genotype: GII.3[GII.P41]"
gene <1..5075
/gene="ORF1"
CDS <1..5075
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59061.1"
/translation="AAATSNNDNAKSSSDGVLNSMAVTFKRALGARPKQPPPRETTQK
QKPPRPPTPELVKKIPPPPPNGEDELVVSYSVKDGVSGLPELSTVSQPDEANTAFSVP
PLNQRENRDAKEPLPGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPL
SLYWRPVYTPQYLMSPDTLRKLHGELFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQR
TTGFFRPYQDWNRKPLPTMDDSKLKKMANIILCALSSLFTRPIKDIIGKLRPLNILNI
LASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVV
MGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKDEANELA
MVRSIEDAVLDLEAIENNHMTSLLKDKDSLATYMRTLDLEEEKARRLSTKSASPDIVG
TINALLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLARELAKKIAATLT
GDQRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRI
ENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDVEKAKRDFPGQP
DMWKDAFKPDFSHIKLMLAPQGGFDKNGNTPHGKGVMKTLTSGSLIARASGLLHERLD
EYELQGPTPTTFNFDQNKVFAFRQLAAENKYGLMDTMRVGSQLKGVKTVSELKQALKN
IAIKRCQIVYNGSTYSLESDGKGNVKVEKVQSTTVQTNNELSGALHHLRCARIRYYVK
CAQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDAEETINKDGCPKPKDDEEF
VISSEDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQ
DRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRN
PDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHV
IPQGSQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKR
PTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKR
GNDYVVIGVHTAAARGGNTVICATQGSEGEAMLEGGDNKGTYCGAPILGPGNAPKLST
KTKFWRSSTAPLPPGTYEPAYLGGKDPRIKGGPSLQQVMRDQLKPFMEPRGKPPNPSV
LEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGYPHHMRKNECWNGESFTGKL
ADQASKANLMYEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMVRCARA
FGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYNYHYDADYSRWDSTQQRAVLA
AALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFKISITEGLPSGVPCTSQWNSIAHW
LLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRP
DKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSETM
IPHSQRPIQLMSLLGEAALHGPSFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFS
DLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..965
/gene="ORF1"
/product="p48"
mat_peptide 966..2063
/gene="ORF1"
/product="NTPase"
mat_peptide 2064..2600
/gene="ORF1"
/product="p22"
mat_peptide 2601..2999
/gene="ORF1"
/product="VPg"
mat_peptide 3000..3542
/gene="ORF1"
/product="Pro"
mat_peptide 3543..5072
/gene="ORF1"
/product="RdRp"
gene 5056..6702
/gene="ORF2"
CDS 5056..6702
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59062.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVVGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKVIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPINLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKIKPFTLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGTLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPAP
LGTPDFRGKVFGVASQRNPDSTTRAHEAKVDTTSGRFTPKLGSLEISTESGDFDPNQP
TRFTPVGIGVDNEADFQQWSLPDYSGQFTHNMHLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
gene 6702..7466
/gene="ORF3"
CDS 6702..7466
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59063.1"
/translation="MAGAFIAGLAGDMLTSTVGSLVNAGANAINQKVDFENNKYLQNA
SFNHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPITRVLDWSG
TRYWAPSATSTTSMSGGFTSQTVHRTTPNFKTNQAPKSTPSSGSSVRSNSTQLTSLSS
HSSGSSRSSGSTVVSSLPSSNRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASSSD
TVSTVPKSVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 ccgctgctgc taccagcaac aacgacaacg caaaatcttc aagtgacgga gtactaaata
61 gtatggctgt cacttttaaa cgagccctcg gggcccggcc caaacagccg cccccgaggg
121 aaacaacaca aaaacaaaaa cccccacgac cgcccactcc ggagttggtc aaaaagatcc
181 cgcctccccc gcccaacggg gaggacgagt tagtggtctc ctatagtgtt aaagatggcg
241 tctccggttt gcctgagctc tctaccgtca gtcaaccaga cgaggccaac acagcattta
301 gtgtcccccc attaaaccaa agggagaaca gagatgctaa ggaaccactg cccggcacca
361 tcttggagat gtgggacgga gagatctacc attatggcct gtacgtggaa cggggtctgg
421 tgcttggggt acacaaacca ccagcggcta ttagtcttgc caaggttgag ttgacaccat
481 tgtctctata ttggagacca gtgtataccc cccagtacct tatgtccccg gacactctca
541 gaaagctaca tggagaacta ttcccttata cggcctttga taataactgt tatgccttct
601 gttgttgggt tttagatcta aacgactctt ggcttagcag gagaatgata cagagaacaa
661 ctggcttttt ccggccctac caggactgga acagaaagcc ccttcccacc atggatgatt
721 ccaaattgaa aaagatggcc aatataatac tgtgtgcttt gtcatcgctg tttaccaggc
781 ccattaagga cataattgga aagttgagac ccctaaacat cctcaatata ttggcttcct
841 gcgattggac ttttgcaggt atagtagaat ccctaatcct cttggcagag ctctttggag
901 ttttctggac gcccccagat gtgtctgcga tgatcgcccc cttactaggt gactacgagc
961 tacagggacc tgaagatctt gctgtggaac tcgtaccagt agtaatgggg gggataggtt
1021 tggttctagg tttcaccaaa gaaaagattg gaaaaatgct atcatctgct gcatccactc
1081 ttagggcttg taaagacctt ggagcatacg ggttggaaat cttaaaattg gtcatgaagt
1141 ggttcttccc gaagaaagat gaggcaaacg agctcgcaat ggtgagatcc atcgaggacg
1201 cagtattgga tctcgaagca attgaaaaca accacatgac ctctttgctc aaagacaagg
1261 acagtttggc aacctacatg agaactctag atcttgaaga ggagaaggct agaagactct
1321 ccaccaagtc tgcctctcct gacattgtgg gcacaatcaa tgccctattg gcgcggatcg
1381 cagccgcccg ctccctggtg catcgggcaa aagaagagct ctctagcagg ccaaggcccg
1441 ttgttgtgat gatatcaggc aaaccaggaa taggaaagac tcacctcgct agagagttag
1501 caaagaaaat tgcagccacc ctcacaggag atcagagggt gggccttgtc ccacggaacg
1561 gtgttgacca ctgggacgca tacaaaggtg agagagtcgt cctttgggat gactacggga
1621 tgagcaatcc cattcacgac gccctcagac tgcaagaact tgctgacacg tgccccctaa
1681 cactaaattg tgataggatt gagaacaagg gaaaagtctt tgacagtgac gctataatca
1741 ttacaactaa tctggccaac ccagcaccac tggactatgt caactttgaa gcatgctcaa
1801 ggcgcattga cttcctcgtg tatgctgatg cccctgatgt tgaaaaggcg aagcgcgact
1861 ttccaggaca acctgatatg tggaaggacg ctttcaaacc cgacttctca cacataaaac
1921 taatgctggc ccctcaaggt gggtttgata agaacggcaa caccccacac ggaaagggcg
1981 tcatgaaaac cctcacatct ggttctctca ttgcacgtgc atcagggctc ctccatgaaa
2041 gattggacga atacgagttg caaggcccaa cgcccacaac cttcaatttc gaccagaaca
2101 aggtctttgc tttcaggcaa ctcgctgctg aaaacaaata cgggttgatg gacactatga
2161 gagtgggaag ccagctcaag ggagtcaaaa ctgtgtcaga gcttaagcag gcgctcaaga
2221 acatcgcaat taaaaggtgt cagatagtct acaatggttc cacatactca cttgaatctg
2281 atggcaaagg taatgtgaaa gttgagaagg tacagagtac aactgtgcaa acaaacaatg
2341 agctatctgg tgcgctacac cacctcaggt gcgccaggat cagatattat gttaagtgtg
2401 cccaggaggc cctttattcc atcatccaaa ttgctggggc cgcgtttgtc accacgcgca
2461 ttgcaaaacg catgaacata caaaatctct ggtctaagcc acaggtggag gatgcagaag
2521 aaaccatcaa taaagatggg tgtccaaagc caaaagatga tgaggaattt gtcatctcgt
2581 ctgaagacat caaagtcgag ggcaagaagg gaaagaacaa gtctggccgt ggcaagaaac
2641 acacagcctt ttcaagcaag ggtctcagtg atgaggagta cgatgaatac aaaagaatta
2701 gagaagaaag aaatggtaag tactccatag aagaatacct tcaggacagg gacaaatact
2761 atgaagaggt ggccatagcc agggctactg aagaggactt ctgtgaggaa gaggaagcca
2821 aaatccgaca gaggattttc agaccaacga ggaaacaacg taaagaggag agggcttctc
2881 ttggcctggt cacaggctca gaaatcagga agaggaaccc agacgacttc aaacccaagg
2941 gaaagttgtg ggctgatgac gacaggagtg tcgattacaa tgagaaactc agctttgaag
3001 ctcccccaag catctggtca agaatagtca actttggttc aggttggggt ttctgggttt
3061 caccaagttt gtttataaca tccacccatg ttatacctca gggatcacag gagttcttcg
3121 gggtttccat taaacagatc caaatccaca aatcgggtga gttctgccga ctaagatttc
3181 caaaaccaat cagaactgat gtgacaggca tgatcctgga ggaaggggcc cctgaaggaa
3241 cagtggccac actactcata aagagaccaa ctggggaact catgccactg gcagctagga
3301 tgggcaccca cgcaactatg aagatccagg gtcgcactgt tgggggccaa atgggaatgc
3361 tcttgacagg atccaacgcc aagagcatgg acctgggtac tacaccaggt gattgtgggt
3421 gtccatatat ctacaaaaga ggaaatgact acgtggtcat tggagtccac actgccgccg
3481 ctcgcggggg gaacaccgtc atctgtgcaa cccagggaag cgagggtgag gccatgcttg
3541 aaggtggtga caacaaaggc acctattgcg gtgccccaat cctaggtcca ggaaatgccc
3601 ccaagctcag cactaagacc aaattttgga ggtcctcaac agctccactc ccacctggca
3661 catacgaacc agcctacctc ggaggtaagg accccaggat caaaggtggc ccctcattac
3721 aacaagtcat gagggatcaa ttaaagccat tcatggaacc caggggcaaa ccaccaaacc
3781 caagtgtgct agaagctgcc aaaaagacca tcattaatgt tcttgaacaa acaatagacc
3841 caccacagaa atggtcattt gcacaagcat gcgcatcgct tgacaaaacc acctccagtg
3901 gctacccgca ccacatgcgg aagaatgaat gttggaatgg agagtccttc acaggaaaat
3961 tggcagacca agcttcaaaa gctaacctaa tgtatgagga aggtaaaaac atgaccccgg
4021 tctacacagg tgccctcaag gatgagctag tcaaaactga caaaatatat ggcaagatta
4081 agaagaggct cctctggggg tcagacttgg caaccatggt ccggtgcgct cgagcattcg
4141 gagggctaat ggatgaactc aaggcccact gcgtcacact ccctattagg gttgggatga
4201 acatgaatga ggatggcccc atcatctttg agaagcactc caggtacaac taccattatg
4261 atgcagatta ctctcggtgg gattcaacac aacagagggc tgtgttagct gcagctctag
4321 aaatcatggt aaaattttcc ccagaaccac acctagccca gatagtcgca gaagaccttt
4381 tgtcccccag tgtgatggac gtgggcgatt ttaaaatatc aatcactgaa gggctcccct
4441 ctggggtgcc ttgcacctca caatggaact ccatcgccca ttggctcctc acactctgtg
4501 cactctctga ggtaacaaat ttatcccctg acaccatcca agcaaattct cttttttctt
4561 tctatggtga tgatgaaatt gtgagcacag atattaaatt ggatccagaa aagctgacag
4621 ctaaattgaa agagtatggg ctaaaaccaa ctcgccctga taagactgaa ggacctctgg
4681 tcatctctga ggacttgaat ggtctgacct tcctgcggag aactgtgacc cgcgacccag
4741 ctggttggtt tggaaaattg gaacagagct caatacttag acaaatgtat tggaccaggg
4801 gccccaatca tgaggacccc tccgaaacaa tgataccaca ttcccaaaga cccatacagc
4861 taatgtccct actaggtgaa gctgcactgc atggcccatc attctacagc aagatcagta
4921 agctagttat tgcagagttg aaggaaggtg gcatggattt ttacgtgccc agacaagagc
4981 caatgtttcg atggatgagg ttctcagact tgagcacgtg ggagggcgat cgcaatctgg
5041 ctcccagttt tgtgaatgaa gatggcgtcg aatgacgctg ctccatctaa cgatggtgcc
5101 gccggcctcg tcccagagat caacaatgag gcaatggcgc tagagccagt ggtgggtgca
5161 gcgatagcag cacccctcac tggccagcaa aacataattg atccctggat tatgaataat
5221 tttgtgcaag cacctggtgg tgagtttaca gtgtcaccta ggaattcccc tggtgaagtg
5281 cttcttaatt tagaattagg tccagaaata aacccctatt tggctcacct tgctaggatg
5341 tacaatggtt atgcaggtgg gtttgaagtg caggtagtcc tggctggaaa tgcgtttaca
5401 gcaggaaagg tgatctttgc agctataccc cccaattttc caattgataa tctgagcgca
5461 gcacaaatta caatgtgccc gcatgtgatt gtggatgtca ggcagctgga accaattaat
5521 cttccgatgc ctgatgtccg caacaatttc tttcattata atcaagggtc tgattcgagg
5581 ttacgcttaa ttgcaatgct gtatacacct cttagggcaa acaattccgg agatgatgtt
5641 tttactgtgt cctgtagagt attaactagg cctagccctg atttctcatt caattttctt
5701 gtcccaccca ctgtggaatc aaagataaaa cccttcaccc tccccattct gactatctct
5761 gaaatgtcta attccaggtt tccagtgcca attgactctc tgcacaccag cccgactgag
5821 aacattgttg tccagtgcca aaatgggcgc gtcactcttg acggtgagtt aatgggtacc
5881 acccaactct tgccgagtca gatatgtgct ttcaggggca cgctcaccag atcaacaagc
5941 agggccagtg accaagccga cacagcaacc cctaggttat tcaattatta ttggcacata
6001 caattggaca atctaaatgg aaccccctac gaccctgcag aggacatacc agcccctctg
6061 ggaacaccag acttccgggg caaggtcttt ggcgtagcca gccagagaaa ccctgacagc
6121 acaacaagag cacatgaagc aaaagtggac acaacatctg gtcgcttcac cccgaaattg
6181 ggctccctag aaatatccac tgaatccggt gactttgacc caaaccaacc aacaagattc
6241 accccagttg gcattggggt tgacaatgag gcagattttc agcaatggtc cttacctgac
6301 tattccggtc agttcactca caacatgcac ttagccccag ctgtcgcccc caattttcct
6361 ggtgagcagc ttcttttctt ccgctcacag ttgccatctt ctggtgggcg gtcaaacggg
6421 attctagact gcctggtccc ccaggaatgg gttcaacact tctaccagga atcagcccct
6481 gcccaaacac aggtggccct ggttaggtat gttaaccctg acactggtag agtgctattt
6541 gaggccaagc tacataaatt aggtttcatg actatagcta agaatggtga ctctccaata
6601 accgtccctc caaatgggta ctttaggttt gaatcttggg tgaacccctt ttacacactt
6661 gcccccatgg gaactggaaa tgggcgtaga aggattcaat aatggctgga gcctttatag
6721 caggattggc tggtgacatg ctcacaagta ctgtgggatc tttagttaat gcaggggcta
6781 atgctatcaa tcaaaaagtt gattttgaaa ataataaata tttacaaaat gcatctttta
6841 atcatgataa ggagatgtta aatgcacaaa ttgaggcaac aaagaggctg caggctgaca
6901 tgattgctat caaacaaggg gtcttgaccg ctggcggctt ttcccccact gatgcagccc
6961 gtggggcaat taatgccccc ataacaagag ttttggactg gagtggaacg aggtactggg
7021 caccaagcgc cacctccaca acctcaatgt caggtggctt cacaagccaa actgtacaca
7081 gaaccacacc aaattttaaa acgaaccagg cccccaagtc cacacccagc agtgggtctt
7141 cagtgagatc aaactcaacc caactcacta gcttgagctc acactcatcc gggtcgtctc
7201 gatccagcgg gtctacggtt gttagctcat tgccatcttc caacaggact agggattggg
7261 tcaatcaaca gaatttcaat ttggaaccac acatgcctgg atctctcagg acagcttttg
7321 tcactccacc atctagtaca gcctctagtt cagacacggt ctcaaccgtg cccaaaagtg
7381 ttttggactc ctggacatct gcgtttaata cgcgcagaca gccgctattc gcacaccttc
7441 gtagaagggg ggagtcaaat gtttagtgaa aagattatct taaatttagt ttagattgga
7501 tttaatttgg aatctttt
//