Typing tool
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Typing tool
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Complete norovirus genomes
| MW305703 | GII.12 | |
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| GII.P33 |
ORF1: 1..5075
ORF2: 5056..6663
ORF3: 6663..7442
LOCUS MW305703 7488 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate CMH-N006-11-c1 nonstructural polyprotein
(ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes,
complete cds.
ACCESSION MW305703
VERSION MW305703.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7488)
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JOURNAL Unpublished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 7488)
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..7488
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="CMH-N006-11-c1"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Thailand"
/collection_date="23-Jan-2011"
/note="genotype: GII.12[GII.P33]"
gene <1..5075
/gene="ORF1"
CDS <1..5075
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59445.1"
/translation="AAAISNNDIAKSSSDGVLSSMAVTFKRALGARPKQPPPRETTQK
QKPPRPPTPELIKKIPPPPPNGEDDIVVSYSAKEGVSGLPELSTVRQPDETNSAFSVP
PLNQRENRDAKEPLPGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPL
SLYWRPVYTPQYLISPETLKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQR
TTGFFRPYQDWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKDIIGKLRPLNILNI
LASCDWTFAGVVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVV
MGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKDEANELA
MVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDLEEEKARKLSTKSASPDIVG
TINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLARDLAKKVAATLT
GDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRI
ENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDVEKAKRDFPGQP
DMWKDAFRPDFSHIKLMLAPQGGFDKNGNTPHGKGVMKTLTSGSLVARASGLLHERLD
EYELQGPTPTTFNFDQNKVFAFRQLAAENKYGLMDTMRVGSQLKNVKTVSELKQALKN
IAIRRCQIVYSGLTYSLESDGKGNVRVEKVQSPAVQTNNELTGALHHLRCARIRYYVK
CVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSRPQVEDEEETTSKDGCPKPKDEEEF
VISSEDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQ
DRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRN
PDDFKPKGRLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHV
IPQGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKR
PTGELMPLAARMGTHATMRIQGRAVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKR
GNDYVVIGVHTAAARGGNTVICATQGSEGEAVLEGGDNKGTYCGAPILGPGNAPKLST
KTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSV
LEAAKKTIINVLEQTIDPPQKWTFAQACASLDKTTSSGYPHHVRKNEHWNGESFTGKL
ADQASKANLMFEEGKHMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARA
FGGLMDEFKAHCVTLPIRVGMNMNEDGPIIFEKHSRYTYHYDADYSRWDSTQQRAILA
AALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFKISITEGLPSGVPCTSQWNSIAHW
LLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRP
DKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPAETM
VPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPRQEPMFRWMRFS
DLSTWEGDRNLAPNFVNEDGVE"
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..6663
/gene="ORF2"
CDS 5056..6663
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59446.1"
/translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ
NNVIDPWIRLNFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKLVFAAVPPHFPLENISPGQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQQNEPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP
TVESKTKPFTLPILTIGELTNSRFPVPIDELYTSPNESLVVQPQNGRCALDGELQGTT
QLLPTAICSFRGRINQKVSGENHVWNMQVTNINGTPFDPTEDVPAPLGTPDFSGKLFG
VLSQRDHDNACRSHDAVIATNSAKFTPKLGAIQIGTWEQDDVHINQPTKFTPVGLFES
EGFNQWTLPNYSGALTLNMGLAPPVAPTFPGEQILFFRSHIPLKGGVADPVIDCLLPQ
EWIQHLYQESAPSQTDVALIRFTNPDTGRVLFEAKLHRSGYITVANTGSRPIVVPANG
YFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6663..7442
/gene="ORF3"
CDS 6663..7442
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59447.1"
/translation="MAGAFIAGLAGDIVTSGIGSLVNAGANAINQKVDFENSKQLQQA
SFNHDKEMLQAQIQATKQLQADMIAIRQGVLTAGGFSPTDAARGAVNAPMTQVLDWNG
TRHWAPGAMKTTAFSGGFTSASHARTVDLTRKTSATPASMPVSRPSSTASTVSTRSTL
ISGSSNPSSLVRSSSSISSQSASSSSRTSDWVRSQNRALEPYMSGALRTAYVTPPSSR
ASSNGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRRRGESQV"
ORIGIN
1 ccgctgctgc tatcagcaac aacgacatcg caaaatcttc aagtgacgga gtactaagta
61 gtatggctgt cacttttaaa cgagccctcg gggcccggcc taaacagccg cccccgaggg
121 aaacaacaca aaaacaaaaa cctccacgac cgcccacccc ggagttaatc aaaaagattc
181 cacctccccc gcccaacggg gaggacgata tagtggtatc ctacagtgcc aaagaggggg
241 tctccggcct gcctgagcta tccaccgtca ggcagccgga tgagacaaac tcagcattta
301 gtgtcccccc actcaaccag agggaaaaca gggatgccaa agaaccgctg cctggcacca
361 tattggaaat gtgggatgga gagatctacc actacggctt gtacgtggag cggggtttgg
421 tgcttggggt gcacaaacca ccagcggcta ttagcctcgc aaaggttgaa ctaacaccgc
481 tgtctctgta ctggagacca gtgtacaccc ctcagtacct catatccccg gaaacgctca
541 aaaagctaca tggagagaca ttcccttata cggcctttga taacaactgt tacgccttct
601 gttgttgggt cttggatcta aacgactctt ggctcagcag gaggatgatt cagagaacaa
661 ctggcttctt cagaccctac caggactgga acaggaaacc tctccccact atggatgatt
721 ccaaattgaa aaaggtggct aatatagtcc tgtgtgcttt gtcatcacta ttcaccaggc
781 ccattaagga cataatagga aaactaaggc ccttaaacat actcaacata ctagcttcct
841 gcgactggac tttcgcagga gtggtggaat ccctaattct ccttgcagaa ctcttcggag
901 ttttctggac acccccagat gtgtctgcga tgatcgcccc cttactaggt gactacgaac
961 tacagggacc tgaagatctc gctgtagaac tcgtaccagt agtaatgggg gggataggtt
1021 tggttctagg tttcaccaag gagaagattg gcaagatgct gtcatccgcc gcgtccaccc
1081 tcagagcttg taaagacctt ggagcatatg ggttagaaat cctgaagttg gtcatgaaat
1141 ggttcttccc gaagaaagac gaggcaaatg aacttgcaat ggtgagatcc attgaggacg
1201 cagtgctgga cctcgaagca attgaaaaca atcacatgac caccctgctc aaagacaaag
1261 acagtttggc aacctacatg aagaccctgg atcttgaaga ggagaaagct aggaaacttt
1321 ccaccaaatc cgcttctcct gatattgtgg gcacaatcaa ttcacttctg gcacggattg
1381 cagctgcccg ttccctggtg caccgggcaa aagaagagct ttcaagtagg ccaagacccg
1441 ttgtcgttat gatatcagga aagccaggga tagggaagac ccatcttgcc agagatttgg
1501 caaagaaagt tgcagccacc ctcacaggag accagagggt gggcctcatc ccacggaatg
1561 gtgtcgacca ttgggatgca tacaaaggtg agagagtcgt cctttgggat gactatggaa
1621 tgagtaaccc cattcatgac gcccttaggc tacaagaact tgctgacact tgccccctaa
1681 cattaaattg tgatagaatt gagaacaaag gaaaggtttt tgacagtgat gccataatta
1741 ttacaactaa tttggctaac ccggcaccac tggactatgt taactttgaa gcgtgttcga
1801 ggcgtatcga cttccttgtg tacgctgatg cccccgacgt tgaaaaggca aaacgcgact
1861 tcccagggca acctgacatg tggaaggatg cttttagacc tgacttctca cacataaagt
1921 taatgttggc tcctcagggt ggttttgata agaacggcaa caccccacat ggaaaaggtg
1981 tcatgaaaac cctcacatct ggctccctcg ttgcccgtgc ttcaggactc ctccacgaaa
2041 gactggacga gtacgagttg caagggccaa cacccacaac cttcaatttc gaccaaaaca
2101 aggtgttcgc ctttaggcag ctcgccgctg aaaataaata cgggctgatg gacaccatga
2161 gagtgggaag ccagctcaag aatgtaaaaa ctgtgtcaga gctcaaacag gcactcaaga
2221 acattgcaat tagaaggtgc cagatagtct acagtggtct cacatactca cttgaatctg
2281 atggcaaagg taatgtaagg gttgagaagg tgcaaagtcc agctgtgcag accaacaatg
2341 agctaactgg cgcactacac catctgaggt gcgctaggat tagatattat gttaagtgtg
2401 ttcaggaagc tttgtattcc atcatccaaa ttgctggggc cgcgtttgtc accacgcgca
2461 ttgcaaagcg catgaacata caaaacctct ggtccagacc acaggtggag gatgaggaag
2521 agaccaccag caaagacggg tgcccaaaac caaaggatga ggaggagttt gtcatctcgt
2581 ctgaagacat caaagtcgaa ggcaagaagg gaaagaacaa gtctggtcgt ggcaagaaac
2641 acacagcctt ttcgagtaaa ggtcttagtg atgaggagta cgatgagtat aaaagaatta
2701 gagaagaaag aaatggtaag tactccatag aagaatacct ccaggacaga gacaagtact
2761 atgaggaggt ggccatagcc agagctactg aagaggactt ctgtgaggaa gaagaagcca
2821 agattcgtca gaggattttc agaccaacaa ggaagcaacg caaggaggag agggcttcac
2881 ttggactggt tacaggctca gaaatcagga aaaggaaccc ggatgacttc aaacccaaag
2941 gaagactgtg ggctgatgat gacaggagtg tcgattacaa tgaaaagctc agctttgagg
3001 cccccccaag catctggtcg agaatagtca actttggatc aggctggggc ttctgggtct
3061 caccaagcct ttttataaca tccacccatg tcatacctca aggggcacaa gaattcttcg
3121 gtgtttccat caaacagatc caaattcaca agtcgggtga attctgccga ctaagattcc
3181 caaaaccaat tagaactgat gtgacaggta tgatcctgga ggagggggcc cctgaaggga
3241 ctgtggccac attgctcata aaaaggccaa ctggagagct gatgccactg gcagctagaa
3301 tgggtaccca tgcaactatg aggatccagg gtcgagctgt cggggggcag atggggatgc
3361 tcctgacggg atccaacgcc aagagcatgg atttgggtac cacaccaggt gactgtggat
3421 gcccatacat atataaaaga ggaaatgact acgtagtcat cggggtccac acagctgccg
3481 cccgcggagg gaacactgtc atctgtgcaa cacaaggaag tgagggcgag gctgtgcttg
3541 aaggtggcga caacaaaggc acctattgtg gcgccccaat cctaggtcca ggaaatgccc
3601 ccaaactcag tactaaaacc aaattctgga ggtcctcaac agcaccactc ccacctggca
3661 catacgaacc agcttacctc ggaggcaaag accccagagt aaaaggtggc ccctcattac
3721 agcaagttat gagagaccaa ctgaaaccat ttacagaacc cagaggtaag ccaccaaagc
3781 ccagtgtact agaagcagcc aaaaagacaa tcattaatgt ccttgagcaa acaatagacc
3841 caccccaaaa atggacgttc gcacaggcgt gcgcatccct cgacaaaaca acctctagtg
3901 gctacccgca ccacgtgcgg aagaatgaac attggaatgg ggaatctttc acaggaaaat
3961 tggctgatca ggcttcaaaa gctaacctga tgtttgagga aggtaaacac atgacaccag
4021 tctacacggg agccctcaag gatgagttag tcaaaaccga taaaatatat ggcaagatca
4081 agaagaggtt gctatggggt tcagatctgg caaccatgat ccgctgcgct cgagcgttcg
4141 gagggttaat ggatgaattc aaggctcact gtgtcacact ccccattagg gtagggatga
4201 acatgaatga ggatggcccc atcatttttg agaaacactc tagatacacc taccattatg
4261 atgcagacta ctctcggtgg gactcaacac agcagagagc tattttagct gcagccctgg
4321 agatcatggt aaaattttcc ccagaaccac acctggccca gatcgttgca gaggatctcc
4381 tatctcccag cgtgatggac gtgggcgatt tcaaaatatc aattactgaa ggactcccct
4441 ctggggtgcc ttgcacctca caatggaatt ctattgctca ttggctcctc acgctttgtg
4501 cactctctga ggtaacagat ttgtctcctg acatcatcca agcaaactca ctcttttctt
4561 tctatggtga cgatgaaatt gtgagcacag acatcaaatt agacccagaa aagttgacag
4621 ctaaactaaa agagtatggt ctcaagccaa cccgtcctga caagactgaa gggcctctgg
4681 tcatttctga ggacttagat ggtctgacct tcttacggag gactgtgacc cgtgacccag
4741 caggttggtt tggaaaattg gaacaaagct caatacttag acagatgtat tggaccaggg
4801 gccccaacca tgaggatccc gctgaaacaa tggtgccaca ctcccaaaga cccatacagt
4861 tgatgtccct attaggtgaa gctgcattac atggcccatc attctacagc aaaatcagca
4921 aattggtcat ctcagagtta aaagaaggtg gcatggactt ttacgtgcca aggcaagagc
4981 caatgtttcg atggatgagg ttctcagact tgagcacgtg ggagggcgat cgcaatctgg
5041 ctcccaattt tgtgaatgaa gatggcgtcg aatgacgccg ctccatctaa tgatggtgca
5101 gccggtctcg taccagaggt caacaatgag accatggcac ttgaaccggt ggctggggct
5161 tcaatagccg ccccactcac cggtcaaaat aatgttatag acccctggat tagattaaac
5221 tttgtgcagg ctcccaatgg agagtttaca gtttcacccc gcaattcgcc tggggaagtc
5281 ctactaaact tggaattagg ccctgaacta aatccatatt tggcacacct ttccagaatg
5341 tacaatggtt atgcaggtgg agttgaggtg caggtactac tggctgggaa cgcgttcacg
5401 gctggaaaac tggtattcgc cgcagttccc cctcattttc cattagaaaa cataagccct
5461 ggccaaataa ccatgttccc tcatgtaatt attgatgtta ggactttaga accagtccta
5521 ttgcctcttc cagatgttag gaacaatttc tttcactaca atcagcaaaa cgaaccgagg
5581 atgaggcttg tggcaatgct ctataccccc cttaggtcta atggttctgg tgatgatgta
5641 tttactgtct cctgtagagt acttactcga ccctctcctg attttgattt caattatttg
5701 gttcccccta cagttgaatc taaaactaaa cccttcacac tccccatctt gaccataggg
5761 gagttaacca attccagatt ccctgtgcct atagatgaac tctacactag ccccaatgag
5821 agtttggtgg tgcaacccca gaacgggagg tgcgcgctgg atggggagtt gcagggcact
5881 actcagctcc tccccacggc gatctgctcg ttcaggggtc ggattaatca gaaagtgagt
5941 ggagagaacc atgtttggaa tatgcaagtc accaacatta acggaacccc ttttgatcca
6001 acggaggatg tcccagctcc tctaggtaca ccagactttt ctggcaagct ctttggcgtc
6061 ctaagccaga gggaccatga taatgcctgt aggagccatg atgcagtgat tgcaactaat
6121 tctgctaaat ttactccaaa gttgggcgct atacaaattg gcacatggga acaagatgat
6181 gtacacatca accaacccac caaatttact ccagttggct tgtttgaaag tgaaggtttt
6241 aatcagtgga cactccctaa ttattctgga gccttaacac tcaacatggg gttggccccc
6301 cctgtggccc ccacatttcc tggtgagcaa attcttttct ttagatccca cattcctctt
6361 aaaggaggtg tggcagaccc agtcattgat tgtctcttgc cccaagagtg gatccaacac
6421 ctttatcagg agtcagcccc ttcacaaaca gatgtagcac tgatcagatt cacaaatcca
6481 gacacagggc gtgtcctatt tgaagcaaaa ttgcacagga gtggctacat cacagtggcc
6541 aacactggta gcagaccaat tgtggtgcca gctaatggtt acttcaggtt tgactcttgg
6601 gttaatcagt tttattctct cgcccccatg ggaactggga atgggcgcag aagggtgcag
6661 taatggctgg ggctttcata gcaggtcttg ctggtgatat agtcaccagt ggtattggct
6721 cactcgtgaa cgctggggcc aatgcaataa accaaaaagt agactttgaa aacagtaagc
6781 aactacagca ggcatccttc aatcatgaca aagagatgct gcaagctcaa attcaagcca
6841 ccaaacagct acaggctgat atgattgcaa tcagacaagg ggtgttgacc gcgggcggct
6901 tctcccccac tgatgcggca agaggtgcag tcaacgcacc catgacacag gtcttggact
6961 ggaacgggac tagacattgg gcccccggag ccatgaaaac aactgctttc tccggtgggt
7021 tcaccagtgc ttctcatgcc aggaccgttg acctgactag gaagacatca gccacaccag
7081 cctctatgcc tgtctctagg cccagttcta ctgcctctac tgtttccacc cgttctacct
7141 tgattagtgg atcctctaat ccttcttctc tagttaggag ttcttccagt atttcttccc
7201 aatctgcttc ctcatcctct cggactagtg attgggtacg tagccaaaac agagcactgg
7261 aaccttatat gagcggggcg ctgcgtacag cctacgtgac acctccatcc agtagggctt
7321 ctagcaatgg cacagtctca accgtgccaa aagaggtttt ggactcctgg acatctgcat
7381 tcaacacaca cagacaaccg ctgtttgctc atctccgccg gagaggggag tcacaagttt
7441 agtgaaaaga tggtcttttc tttcattcct ttgaaatctc tgtctttt
//