Typing tool
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Typing tool
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Complete norovirus genomes
| MW305526 | GII.NA2 | |
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| GII.PNA2 |
ORF1: 1..5051
ORF2: 5032..6660
ORF3: 6660..7424
LOCUS MW305526 7459 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate PNV005999-c2 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305526
VERSION MW305526.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7459)
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JOURNAL Unpublished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 7459)
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..7459
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="PNV005999-c2"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Peru"
/collection_date="28-Apr-2008"
/note="genotype: GII.NA2[GII.PNA2]"
gene <1..5051
/gene="ORF1"
CDS <1..5051
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ58914.1"
/translation="TTSSNSEIHNKDVSNTQNIFANMTVGIKRALGARPKQPPPKPPS
TKKEDKTTLPPIPPPPPNGEDIVITYNKQDDKVSGVPIVSTVETSPLHDTAYSVPPLD
QREKVDAKEPLTGSILEMWDGEIYHYGLYVEKGLVLGVHKPPSALSLARIELTPLSLY
WRTVYTPPYLVAPDTLKKLHGESFPYTAFDNNCYTFCCWVLDLNDSWLNRKCVSRTTG
FYRPYQDWNRKPLPTMDESKLKKVANVFLCGLSSLFTRPIKDLVGRLKPLNILNIVTN
CDWTFPGVVEALILLAELFGIFWTPPDISAFVASLLGDYEMQGPEDIATEIVPVVLGG
IGMVLGFTKERIGRLLSSAASSLRACKEIGNYGIEVVKLVMKWFFPTKNEVNEMEMVR
AIEDAVLDFEAIENNHMTALLKDKNSLATFLRALDMEEEKARKLSTKSASPDIIGTIN
ALLARLAAARSLVHRAKEEMSSRMRPVVIMISGRPGIGKTHLARDLAKKMAATLSGDQ
RVGLVPRNGVDHWDAYKGERIVLWDDYGMSNPVSDALRLQELADTCPLTLNCDRIENK
GKVFDSDTIIITTNLSNPAPLDYVNFEACSRRIDFLVYADSPAVDKAKRDFPGQPDMW
KDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTHSLIARATGLLHERLDEFD
LQGPELPIYNFDQNKVASFRKLAADNKYGLMETIKAGNKLKEVKTLDQFKEAVRDIRI
KPCRIIYNSTAYDLESNGSGKVTVKKVGDQKVQANNELYSALNNLRRARIRYYVKCFQ
EMIYSLLQIAGAAFVTSRMTQRMNVGKLWTKPERTMKAPTEPPAPPIDDWTINPVDTI
PEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERQGRYSIEEYLQDRDRYYEE
LAIAKATEENFCEEEEVKIRQRIFRPTKKQRREERATLGLVTGSEIRKRNPDDFKPKG
KLWADDDRSVNYNERIDFEAPPSLWSRIVNFGSGWGFWVSSNLFITSTHVVPPGMTEA
FGVPTSQIQIHRSGEFCKMRFPKAIRPDVSGMILEEGAPEGTVVTILIKRTTGELMPL
AARMGTHATMKIQGRMIGGQMGMLLTGSNAKNMDLGTVPGDCGCPYVYKRGNDWVVIG
VHTAAARGGNTVICATQGPDGEATLEGGDNHGTYCGAPIMGPGNAPKLSTKTKFWRSS
NAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTAPRGKPPRPAVLEAAKETI
CSVLEQTIEPPQKWSYAQACASLDKTTSSGYPHHKKKNDNWNGESFTGVLADQASKAN
LMFEQGKHMQPVYTAALKDELVKTSKIYETIKKRLLWGSDLGTMIRCARSFGGLMDEM
KANCVRLPIRVGMNMNEDGPIIFEKHAKYRYHYDADYSRWDSTQQRHILGVALDIMVK
FSAEPELSQVVSEDLLSPSVVDVGDFKITINEGLPSGVPCTSQWNSIAHWLLTLCAMS
EVSGLSPDVVQSNSCFSFYGDDEIVSTDIKLDPQKLTDKLREYGLIPTRPDKTEGPLI
IRESLEGLTFLRRDICRDPVGWYGKLDQSSIMRQLYWTKGPNHEDPNETMIPHSQRPI
QLMSLLGEAALHGPTFYKKVSKLVITELKEGGMDFYVPRQEPMYRWMRFSDLSTWEGD
RNLAPEGVNEDGVE"
mat_peptide <1..956
/gene="ORF1"
/product="p48"
mat_peptide 957..2054
/gene="ORF1"
/product="NTPase"
mat_peptide 2055..2591
/gene="ORF1"
/product="p22"
mat_peptide 2592..2975
/gene="ORF1"
/product="VPg"
mat_peptide 2976..3518
/gene="ORF1"
/product="Pro"
mat_peptide 3519..5048
/gene="ORF1"
/product="RdRp"
gene 5032..6660
/gene="ORF2"
CDS 5032..6660
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ58915.1"
/translation="MKMASNDAAPSNDGAANLVPEANSEVLALEPVAGGAIAAPLTGQ
TNIIDPWIMKNFVQAPNGEFTISPRNSPGEILLNLELGPEINPFLAHLSRMYNGFAGG
VEVQVLMAGNAFTAGKVIFAAVPPHFPVENISPPQITMFPHIIVDVRTLEPILIPVPD
VRNNFFHYNQMNDPKMRLIAMLYTPLRSNGSSDDVFTVSCRVLTRPTPDFEFNYLVPP
TVESRTKPFSVPILTIGEMTNSRFPLPIDMLYTSPTDSLVVQPQNGRCTIEGELQGTT
QLVTPNICSLRGAITGHEGNDDNHKWHMTVTSPNGAAFDPTEDVPAPLGTPDFIADIY
GVLSQRNRSIESGQSGPANRSHEAVVSTRSPKFTPKLGSVMIATWNTNDIELQPTKFT
PIGLENPGPFQQWRLPNYSGALTLNMGLASSVFPTYPGEQILFFRSYIPLKGGFGNTA
IDCLVPQEWVQHFYQESAPAQSDVALLRYVNPETGRVLFEAKLHRQGFLTVARSGESP
INVPANGYFRFDSWVNQFYSLAPMGTGNGRRRFQ"
gene 6660..7424
/gene="ORF3"
CDS 6660..7424
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ58916.1"
/translation="MAGAFLAGLAGDIVTNSVGSLVNAGASAINQKIDFENNKYLQGE
SFKHDKEMLNAQIEATKKLQMDMINIKQGVLSAGGFSPTDAARGAINAPMTKVLDWNG
TRYWAPNAPVTTSLSGGFTGQAVHRPTPNFGSNQIPKTMSSRGTSVRSNSTQLTSLGS
QSSGSSRSSVTTVSSSLPSTNRTREWVNQQNLNLEPHLPGSLRTAFVTPPSSTASSSG
TVSTVPKGVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 gcacaaccag ctcaaacagt gaaattcaca acaaagatgt tagtaacaca caaaacatct
61 ttgccaacat gactgttggc ataaagaggg ctctgggggc gaggccaaaa caacctcccc
121 ccaagccccc ttccacaaag aaggaggaca aaaccaccct tcctccaata ccccccccac
181 cccccaatgg tgaggacatt gtcatcacgt ataacaagca agatgacaag gtcagtggag
241 ttcccatcgt ttccactgtt gagacatccc ctctgcatga caccgcatac agtgtccctc
301 ccctggatca aagggaaaag gttgatgcaa aggagcccct aacaggttca atactcgaga
361 tgtgggatgg tgagatctac cactacggcc tctatgtgga gaagggtttg gtcctcggcg
421 tgcacaagcc accatccgcc ttgagcctgg cacgcataga gttaaccccc ctctctctct
481 actggaggac agtctataca ccaccctacc tagtggctcc agacaccctc aagaaactcc
541 acggggaatc attcccctac acggcttttg acaacaactg ctacaccttt tgctgttggg
601 tcttagacct aaacgactca tggcttaata ggaaatgtgt atcaaggact actggcttct
661 acagacccta ccaggattgg aatagaaaac ccctaccaac catggatgag agtaaactca
721 aaaaggtggc caatgtgttt ctgtgtggtc tatccagctt attcaccagg cctattaagg
781 acctcgtagg tagactcaaa ccattgaaca tcctcaacat tgtcaccaac tgtgattgga
841 ctttccccgg tgttgtagaa gctctcatcc tactggcaga actctttggc attttctgga
901 ccccaccgga catatccgct ttcgtagcct ccctgttggg cgactacgag atgcaagggc
961 ctgaggacat tgcaaccgag atcgtgccag ttgttctcgg tggtattggc atggtccttg
1021 gtttcaccaa agagaggatt ggccgactac tgagttcagc tgcatcatca ctcagggcat
1081 gcaaggagat tggcaactac gggatagagg tggtcaaatt ggtgatgaaa tggttctttc
1141 ccaccaaaaa tgaagtgaat gaaatggaga tggttagggc gatagaagat gcggtacttg
1201 acttcgaggc aatagaaaac aaccatatga cagccctgct caaagacaag aacagcctag
1261 ccactttcct cagagcacta gacatggagg aggagaaagc gcggaaattg tcaaccaaat
1321 ccgcgtcacc agacataatc ggtaccataa acgcccttct agccaggctc gccgccgcta
1381 gatccctagt ccacagggcc aaggaagaga tgtcatccag gatgcgtcct gttgtcatta
1441 tgatttctgg ccgacccgga atagggaaga cacaccttgc acgcgacctg gctaagaaga
1501 tggcagcaac cctctcaggt gaccagagag tgggccttgt accaagaaac ggtgtcgatc
1561 actgggatgc atacaaagga gagagaatcg tgctctggga tgattatggc atgagcaacc
1621 ccgtgtctga tgccctacgg ctccaagaac ttgccgacac atgcccccta acacttaatt
1681 gtgacaggat agagaacaaa gggaaagtct ttgatagtga taccataatc ataacaacca
1741 atctgtcaaa cccagctcca cttgattatg taaactttga agcttgctcc cgccgcattg
1801 acttcctcgt ctatgcggat tcccctgcag ttgacaaagc aaagagggat ttccctggtc
1861 aaccagacat gtggaaggat gcattcaaat cagacttctc ccacataaaa ttacaattgg
1921 caccacaagg aggtttcgac aaaaatggca acaccccaca tggtaaagga gtcatgaaga
1981 ccctaaccac acactctctc atagccaggg ctactggttt gttgcatgag agactggatg
2041 aatttgatct acaaggtcca gaattgccca tatacaattt tgaccagaac aaggtggctt
2101 cctttaggaa gctggctgca gacaacaagt atggtctcat ggaaaccata aaagcaggta
2161 acaagttgaa ggaagtcaag acactggatc aattcaaaga ggccgtgagg gacatacgca
2221 taaagccttg cagaataatc tacaattcca cagcttatga cctggagtct aacggctcag
2281 ggaaggtcac tgtcaagaaa gtaggagacc aaaaagtcca agccaacaat gagctctact
2341 ctgccctcaa caacctgcgt agagccagga ttagatacta tgtcaagtgt ttccaagaaa
2401 tgatctactc actcctccaa attgccggtg cggcttttgt cacatcgaga atgacacaaa
2461 ggatgaatgt tggcaagctg tggaccaagc cggagagaac tatgaaggcc cccacggagc
2521 cccctgctcc tccaattgat gattggacca taaacccagt tgacacaatt ccggaaggta
2581 agaaaggcaa gaacaaaagt ggtagaggga agaaacacac tgccttctcc agcaaaggtc
2641 tcagtgatga ggagtacgat gaatacaaga ggatcagaga ggaacgtcaa ggaaggtact
2701 ccatagaaga atacttgcag gacagagacc gctattatga agaattggct atagccaaag
2761 caacagagga aaatttctgt gaagaggaag aagtcaaaat aaggcaaagg atcttcaggc
2821 caaccaagaa acaacgcagg gaagaaagag ccaccctggg actggtcaca ggcagtgaaa
2881 tcaggaaaag gaacccagat gacttcaaac caaagggaaa gctgtgggct gatgatgacc
2941 gtagcgttaa ctacaatgaa aggatagatt ttgaagcccc ccctagtcta tggtctagaa
3001 tagttaattt tggttcaggt tggggtttct gggtctcttc caacctcttc atcacctcca
3061 cacatgttgt tccaccaggc atgacggagg cttttggagt cccaacaagc caaatccaaa
3121 ttcacaggag tggggaattt tgcaagatga gattccccaa agccatcaga cctgatgtct
3181 ctggaatgat tcttgaggaa ggcgcacccg aagggacggt ggtgaccata ctgatcaaga
3241 gaaccactgg agagctcatg ccactggcag cccgtatggg cacccatgcc accatgaaga
3301 tacaggggag gatgattggg ggccaaatgg ggatgcttct cacagggtcc aatgccaaaa
3361 atatggacct tggtaccgtc cccggagatt gtggctgtcc ttatgtctac aaaaggggta
3421 atgattgggt tgtcattggg gtgcacaccg ccgctgcaag gggtggcaac acggtgatat
3481 gtgcaactca gggaccagat ggagaagcca cacttgaggg aggagacaat cacggtactt
3541 actgtggcgc accaatcatg ggaccaggaa atgccccaaa actcagcacc aaaaccaaat
3601 tctggagatc ttccaatgcc ccacttcccc ctggcacata tgaacctgcc tatcttggtg
3661 gtagagaccc cagggttaaa ggtggcccat cactacaaca agtcatgaga gaccaactca
3721 aacccttcac cgctccccgt gggaagccgc caaggccggc agttctagag gccgctaagg
3781 agaccatctg tagcgtactt gagcaaacca tagaaccacc ccaaaagtgg tcctatgcgc
3841 aagcctgtgc ttccctggac aagacaacat caagtggcta cccccaccac aagaagaaga
3901 atgataactg gaatggagag tctttcactg gcgtcctggc tgaccaggca tcaaaagcaa
3961 atctcatgtt tgagcaaggg aaacacatgc agcctgtgta tacagctgca cttaaggatg
4021 aacttgtcaa gaccagtaag atctatgaaa ccatcaagaa aaggctcttg tggggttctg
4081 acctgggcac gatgattcgt tgtgcaagat catttggggg tctcatggat gagatgaagg
4141 ctaactgtgt gagattgccc atcagggtcg ggatgaacat gaatgaagat ggacctataa
4201 tctttgagaa acatgcaaaa tatagatatc attatgatgc tgattattcc aggtgggact
4261 caacccaaca gagacacata ctgggtgttg cacttgacat catggttaaa ttctcagctg
4321 aaccagaact atcacaagtg gtgtctgagg atcttctgtc acccagtgtc gtggatgttg
4381 gtgactttaa gatcacaata aacgagggcc ttccctcagg tgtcccatgc acatctcaat
4441 ggaactcaat tgctcattgg cttctaacac tgtgtgccat gtcggaagtc tctggactct
4501 cccccgacgt ggtacaatca aattcatgtt tctccttcta tggggatgat gagatagtca
4561 gcacagacat aaagttggac ccacaaaaac tgacagacaa actgagagag tatgggctca
4621 ttccaacccg acctgataaa acagaggggc cactcataat tagagagagc ttagagggtc
4681 tgacgttcct caggagagat atatgtaggg acccagtcgg ctggtatggt aagcttgacc
4741 agtcctcaat catgagacaa ctgtattgga ccaaaggacc caaccatgag gatcccaatg
4801 aaacaatgat tccacattct caaagaccaa tacaattaat gtcccttctc ggtgaggctg
4861 ccctgcatgg accaacattt tacaagaaag ttagcaaatt ggtaatcact gaactcaaag
4921 aaggtggaat ggatttttac gtgcccagac aagaaccaat gtacaggtgg atgagattct
4981 ccgacttgag cacgtgggag ggtgatcgca atcttgctcc cgaaggtgtg aatgaagatg
5041 gcgtcgaatg acgccgctcc atctaatgat ggtgctgcca acctcgttcc agaggccaac
5101 tcagaggtat tggcattgga accggtggca ggtggggcta ttgccgcacc tctcactggt
5161 caaacaaata taattgaccc ctggattatg aaaaactttg tgcaggcacc taatggtgaa
5221 ttcacaatat ccccaagaaa ttcccctgga gaaattttgt taaaccttga gttaggacca
5281 gaaattaatc cttttcttgc ccacttatct aggatgtata atgggtttgc tgggggagtg
5341 gaggtacagg tgctcatggc tggcaatgca ttcactgcag gaaaggtcat atttgcggct
5401 gtgccgcctc atttcccagt agaaaacatt agtcccccac agataactat gttcccccac
5461 ataatagttg atgttaggac tcttgaacca attcttatcc ctgtcccaga tgtgagaaat
5521 aatttctttc attacaatca aatgaatgat ccaaagatga ggttaattgc tatgctgtac
5581 acccccttaa gatcaaatgg ttcttctgat gatgttttca ctgtgtcttg tagagttctc
5641 accagaccca cccctgattt tgagttcaat tatttggtac cacccactgt cgagtcaagg
5701 acaaaaccct tcagtgtgcc catcctaaca attggagaga tgacaaattc taggttccca
5761 ttacctattg acatgctgta caccagcccg actgacagtt tggtcgtcca acctcaaaat
5821 ggcaggtgca caattgaagg tgaattgcaa ggtacaactc aattggtgac tccaaacatt
5881 tgttcccttc gaggcgcaat caccgggcat gaaggcaatg atgacaacca caaatggcac
5941 atgacagtca cgagccctaa tggtgccgcc tttgacccaa cagaggatgt gcctgccccc
6001 ctgggcactc cagatttcat agctgacata tatggggttc tctcccagag aaatagatcc
6061 atcgaatctg gccagagtgg tcctgcaaat agatctcatg aggctgttgt ctccacacgg
6121 agtcctaaat ttacccctaa attaggttca gtaatgattg ccacttggaa caccaatgat
6181 attgaacttc agcccaccaa attcacacct ataggtcttg agaatcccgg cccctttcaa
6241 caatggcggc taccaaatta ctcaggagcc ctaacactca acatgggact tgcatcatct
6301 gtattcccaa cataccctgg tgaacaaatt cttttcttcc gttcatacat tcccctcaaa
6361 ggtggctttg gaaacacagc catagattgc cttgtaccac aggaatgggt ccagcacttc
6421 tatcaggaat cagcccctgc acaatcagat gtggcactac ttaggtatgt gaaccctgag
6481 acaggacgtg tcctgtttga ggccaaactg cacagacaag gtttccttac agttgctaga
6541 tcaggtgaaa gtcccatcaa tgttcctgcc aacggttatt tcagatttga ctcttgggtt
6601 aaccaattct actctcttgc ccccatggga actgggaacg ggcgcagaag gtttcagtaa
6661 tggcaggagc tttcttagca ggattggctg gtgacatagt cacaaatagt gtaggttctt
6721 tagttaatgc aggagctagt gcaatcaacc agaaaattga ttttgaaaat aataaatacc
6781 ttcaaggaga atcttttaaa catgataaag aaatgctgaa tgcacaaatt gaggctacaa
6841 agaaattgca gatggatatg ataaacatca aacaaggagt tctttcagct ggggggttct
6901 cacccactga tgcggctcgt ggagccatca acgctcctat gacaaaggtt ctggattgga
6961 atgggactag atactgggca cccaatgctc ctgtaacaac atcactgtct ggtggcttca
7021 ctgggcaggc cgtacacagg cccacaccaa attttggcag caatcaaatc ccaaagacaa
7081 tgtccagtag gggaacatct gtgagatcaa attcaactca attgaccagt ctgggttccc
7141 aatcttctgg ttcctcccga agcagtgtga ctaccgtgag tagctcattg ccttcaacca
7201 acaggactag agagtgggtg aaccaacaaa atctcaattt ggaacctcac ctacctggat
7261 cactgaggac agcctttgtc actccaccat cgagcaccgc ttccagctca ggcacagtct
7321 caaccgtgcc caaaggtgtt ttggactcct ggacatctgc attcaacaca cgcagacagc
7381 cgctgtttgc acaccttcgt agaagggggg agtcaaatgt ttagtgaaaa gattatttaa
7441 ttagaactaa tttcaattt
//