Typing tool
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Typing tool
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Complete norovirus genomes
| MW305660 | GII.17 | |
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| GII.P13 |
ORF1: 1..5078
ORF2: 5059..6684
ORF3: 6684..7463
LOCUS MW305660 7512 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate 1109SR nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MW305660
VERSION MW305660.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7512)
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JOURNAL Unpublished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 7512)
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..7512
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="1109SR"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Paraguay"
/collection_date="20-Aug-2005"
/note="genotype: GII.17[GII.P13]"
gene <1..5078
/gene="ORF1"
CDS <1..5078
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59316.1"
/translation="VAGKNNNNDNAKSSSDGLFSNMTVTFKKALGARPKQPPPGETKQ
VSKPPRPPTPELVKRIPPPPPNGEDEPKVVYKVGEGVSGLPDLTTVTQPEAQCTAYSV
PPLSQREAGDAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAISIAKIELTP
LSLYWRVVYTPQYLIAPDTLKNLNGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQ
RTTGFFRPYQEWNRKPLPTMDEPKIKKVANAVLCSLSSLFTRPIKDIIGKLKPMNILN
ILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAVELVPV
VMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANEL
AMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIV
GTINSLLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELAKKVATTL
AGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCPLTLNCDR
IENKGKVFDSDAIIITTNLSNPAPLDYVNFEACSRRIDFLVYADAPDIEKAKRDFPGQ
PDMWKDHYRSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKSLTVGSLIARASGLLHERM
DEFELQGPGLSTFNFDRNKVAAFRQLAAENKYGMLDTLRVGNQLKGVKTMDELKRAIN
NITIKKCQIVYNGCTYTMESDGHGKVLVDKVQNTTVQTNNELAGALHHLRSARIRYYV
KCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPAEDNDESEDKGGCPKPRDEDE
FTVDSKDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYL
QDRDRYYEELAIAKATEEDFCEEEEVKIRQRIFRPTRKQRKEERATLGLVTGSEIRKR
NPDDFKPRGKLWADDDRSVDYNEKISFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTH
VIPKGITEAFGVPISQIQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEGTVATILVK
RPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYK
RGNDFVVIGVHTAAARGGNTVICATQGNEGEATLEGGDNKGTYCGAPILGPGNAPKLS
TKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPNPS
VLESAKRTIINVLEQTIDPPQKWTYAQACASLDKTTSSGYPHHVRKNDYWSGETFTGK
LADQASKANLMYEEGKHMTPVYTAALKDELVKTDKIYSKIKKRLLWGSDLSTMIRCAR
AFGGLMDELKAHCITLPVRVGMNMNEDGPIIFEKHSRYTYHYDADYSRWDSTQQRAVL
AAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKITINEGLPSGVPCTSQWNSISH
WLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTR
PDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTKGPNHDDPSET
MIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQESMFRWMRF
SDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..968
/gene="ORF1"
/product="p48"
mat_peptide 969..2066
/gene="ORF1"
/product="NTPase"
mat_peptide 2067..2603
/gene="ORF1"
/product="p22"
mat_peptide 2604..3002
/gene="ORF1"
/product="VPg"
mat_peptide 3003..3545
/gene="ORF1"
/product="Pro"
mat_peptide 3546..5075
/gene="ORF1"
/product="RdRp"
gene 5059..6684
/gene="ORF2"
CDS 5059..6684
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59317.1"
/translation="MKMASNDAAPSNDGAAGLVPEINTETLPLEPVAGAALAAAVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEVLLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYNNRPSERMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTISELTNSRFPAPIDSLFTAQNNNLNVQCQNGRCTLDGELQGTT
QLLPTGICAFRGKISADVQSSHQDRWHMQLTNLNGTPFDPTDDVPAPLGTPDFTGLLF
GVASQRNVGGAGNNTTRAHEVVIATTSTQFVPKLGSVNFGSESDDFQVGPPTKFTPVG
IKVETGHPFRQWDLPNYSGALTLNMNLAPPVAPNFPGEQLLFFRSNVPCAGGVSEGII
DCLLPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRTGYITVSHSGDYPL
VVPSNGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6684..7463
/gene="ORF3"
CDS 6684..7463
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59318.1"
/translation="MAGAFIAGLAGDMLTSAVGSLANAGANAITQKIDFENNKQLQTA
SFQHDKDMLRAQVDATKQLQAEMIAIKQGILTAGGFSPADAARGAVGAPMTKVLDWSG
TRYWAPNSTKTTSYSGQFTSTPVHTPNFNNKPRPPVKTQPSPSSSGSVYSLSTQSTPL
PGSSSSGSSVSSVSTQSTKLSSVSSMSRTADWVNQQRSLSPYMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRVRGESRV"
ORIGIN
1 ccgttgctgg caaaaacaac aacaacgaca acgcaaaatc ttcaagtgac ggcttgtttt
61 ctaatatgac tgtcactttc aagaaagccc tcggggcgcg gcctaaacag ccgcccccgg
121 gagaaacaaa gcaagtctct aaaccgccaa gaccgccgac accggaattg gtgaagagaa
181 tacccccacc cccacccaat ggcgaagacg agccaaaagt ggtgtacaag gtgggagaag
241 gtgtgtccgg gctgcctgac ttaacaactg tcacgcagcc tgaggcgcaa tgtacagcct
301 atagcgtccc cccactcagt caaagagagg cgggcgacgc gaaggaacca ttacctggct
361 ccatcttgga gatgtgggat ggtgagatct accactatgg gctgtacgtg gagcgtggcc
421 acgtgcttgg ggtgcacaaa ccacccgctg cgataagcat cgctaaaatt gaattaacac
481 cattgtccct ttattggagg gtggtttaca ccccccagta tttgatagct ccagacactt
541 tgaagaacct gaatggagaa tcattcccat acacggcttt tgacaacaac tgctatgctt
601 tttgctgctg ggttctggac cttaatgatt cttggctcag caggagaatg atccaaagaa
661 ctactggttt cttcaggcct taccaggagt ggaacagaaa gcccttacca accatggacg
721 agcccaagat caagaaagtt gcaaacgccg tcctatgttc tctctcttcg ctctttacca
781 gacccattaa agacatcatc ggtaagctaa aaccgatgaa catcctcaac atactggcaa
841 cttgtgactg gacctttgca ggtatagtgg aatcccttat tcttcttgct gaactttttg
901 gggtgttctg gacaccccca gatgtgtctg ctatgatcgc tcccttgctc ggtgattacg
961 agatgcaggg ccctgaggat cttgccgtgg agctcgtgcc cgtggtaatg ggagggatag
1021 gtctggtgtt gggattcacc aaggaaaaga tcggcaagat gctttcatca gctgcgtcta
1081 cactcagggc ttgcaaagac ctaggggctt atgggttgga aatactcaaa ttagttatga
1141 agtggttctt tcccaagaaa gaagaggcca acgagctggc catggtaagg gccattgagg
1201 atgctgtgtt agatctagag gcaatagaaa acaaccatat gaccactctc ctcaaggata
1261 aagacagtct tgccacatac atgagaaccc ttgacttgga ggaagagaaa gcaagaaagc
1321 tctccaccaa atctgcatca ccagacatcg tgggcacaat aaactcactg ttggcaagaa
1381 ttgcagcagc ccggtcacta gtccacaaag caaaagaaga actgtcaagc agacaaagac
1441 ctgttgtcgt catgatatct ggcaggccgg gtattgggaa aactcacctt gccagagagc
1501 tagccaaaaa ggttgcaaca acactagcag gtgaccaaag gattggcctg gtacccagga
1561 atggtgtgga tcattgggac gcctacaaag gagaaagagt ggtgctgtgg gatgactatg
1621 gtatgagcaa ccctatacag gatgccctaa gacttcaaga actggctgac acctgccctc
1681 taacacttaa ctgcgacaga attgaaaata agggaaaggt gtttgacagc gatgccataa
1741 tcataacaac caacctttca aatccagcac ccttagacta tgtcaacttt gaggcctgtt
1801 ccaggcgcat agacttctta gtatatgcag atgcaccaga tatcgaaaag gccaagcgcg
1861 atttccctgg ccaaccagac atgtggaaag accattacag atcagacttc tcacacatca
1921 agcttcaact ggccccacag ggcggttttg acaagaacgg caacacccca catggtaagg
1981 gtgtgatgaa gtccctgact gttgggtcac tgatcgccag agcctctggt ctgctccatg
2041 aaagaatgga cgaatttgag ctacagggtc ctggcctgtc aactttcaac tttgaccgta
2101 ataaggtcgc tgccttcaga cagctggcag ctgaaaataa gtatggcatg ttggacacac
2161 tgagagtagg aaaccagcta aagggtgtca aaaccatgga tgagctgaaa cgagccatca
2221 acaacatcac catcaaaaag tgccagatag tatataatgg atgcacctac actatggaat
2281 ctgatggaca tggcaaagtg ttagttgaca aagtgcaaaa cacaacagtt caaaccaaca
2341 acgagctcgc aggggccctt caccacctca ggtctgcaag aataagatat tatgtcaagt
2401 gcttccaaga ggcaatctac tccctactcc aaattgctgg tgcagctttt gtcacctcac
2461 gcatagtgag gcgtatgaac atctcaaacc tatggtcgaa accacctgct gaagacaacg
2521 atgaatcaga ggacaaagga gggtgtccca aacccagaga tgaggatgag ttcaccgttg
2581 attccaaaga catcaaagtg gaaggaaaga aaggtaaaaa taaatctggg agaggaaaga
2641 aacacacagc tttctccagc aagggcctca gtgatgaaga gtatgatgag tacaaaagaa
2701 tcagagaaga aagaaatggc aagtactcga tagaggagta cctccaggat agggacaggt
2761 attatgagga acttgccatt gctaaagcca ctgaggaaga cttttgtgaa gaggaggagg
2821 tcaaaatccg ccagagaatc ttccgtccta ccagaaagca acggaaggag gagagagcca
2881 ctctcggact cgtcacgggg tcagaaatca ggaagaggaa cccagatgac ttcaaaccaa
2941 gaggaaagct gtgggctgat gatgacagga gtgtggatta taatgagaaa ataagttttg
3001 aagcaccacc aagcatctgg tcaagaatag tcaattttgg ttcgggctgg gggttctggg
3061 tgtccccaag ccttttcata acttcaaccc acgtgatacc aaaggggatc acggaggctt
3121 ttggtgtgcc catcagtcaa atacaaatcc acaagtcagg agagttctgt cgcctgaggt
3181 tcccaaaacc catcaggacg gatgtgagtg ggatgatctt ggaagagggt gcccctgagg
3241 gaaccgtcgc aaccatactt gtcaagcggc cgacagggga gctaatgccc ttggctgcca
3301 gaatgggaac ccatgccaca atgaagatcc aagggagaat ggtgggcggc cagatgggta
3361 tgttgctcac cggctcaaat gccaagagta tggaccttgg tacaacacca ggtgattgtg
3421 gatgccctta catatacaag agaggcaacg attttgtggt catcggcgtg cacaccgcag
3481 cagcacgtgg gggtaataca gttatatgtg ctacacaagg gaatgaaggt gaagccactc
3541 ttgaaggagg ggacaacaag ggcacttact gtggagcccc cattctggga cctggcaacg
3601 caccaaaatt gagcaccaaa acaaaattct ggcgatcttc cactgcacca ctcccaccag
3661 gtacctatga gccagcgtac ctaggtggaa aagacccacg agtgaaggga ggtccgtcct
3721 tgcaacaggt tatgagagac cagctcaagc ctttcactga acccagaggg aagccaccaa
3781 acccaagtgt tcttgaatcg gcaaaaagaa ccatcatcaa tgtcttggag caaaccattg
3841 atccacccca aaagtggaca tatgcccagg catgtgcatc tcttgacaaa acaacctcca
3901 gcggttaccc acatcatgtc cgcaagaatg actactggag cggtgagaca ttcacaggca
3961 aactggcgga tcaagcttca aaggcaaatc ttatgtatga ggaaggaaaa cacatgacac
4021 cggtgtacac cgcggctctc aaggatgaac tggttaaaac tgacaaaatc tatagtaaga
4081 tcaaaaagag actgttatgg ggttctgacc tctccaccat gattcgatgt gctagggcat
4141 tcggtggcct catggatgaa ctcaaagcac actgcatcac cctccctgtc agggttggca
4201 tgaacatgaa tgaagatgga ccaataatat ttgagaaaca ctccagatac acttaccatt
4261 atgatgcaga ctactcccgt tgggattcta cacaacaacg ggcagtgctt gcagcagcac
4321 ttgaaattat ggtgagattt tctgctgagc cacaattggc acagatagtg gctgaggacc
4381 tgctttcacc aagtgtggtc gatgtgggtg acttcaaaat tacaatcaat gagggccttc
4441 catccggcgt accttgcacg tcccagtgga attcaatctc ccactggttg ctcacattgt
4501 gtgctttatc tgaagtaaca ggactaggcc ctgacatcat acaggccaac tctatgtact
4561 ctttctatgg tgatgatgaa attgtgagca ctgacataaa attggaccca gaaaaattaa
4621 ctgcaaaact caaagagtat ggtctcaagc ccactcgtcc tgacaaaact gaggggccac
4681 tggtgattag tgaagatttg aacgggttga cattccttcg ccgcactgtg acccgtgatc
4741 cagcaggctg gtttggaaaa ctagatcaaa gctccatcct caggcaattg tattggacaa
4801 aaggacccaa ccacgacgac cccagtgaaa ccatgatacc acatgcacag aggcccgtac
4861 aactcatggc actactagga gaatcctccc tacatggacc ctcattctac agcaaagtta
4921 gtaaattggt tatatctgaa cttaaggagg gaggaatgga tttttatgtg cccagacaag
4981 agtcaatgtt cagatggatg aggttctcag atctaagcac atgggagggc gatcgcaatc
5041 tggctcccag ttttgtgaat gaagatggcg tcgaatgacg ccgctccatc taatgatggt
5101 gctgcgggcc tcgtcccaga gatcaacacc gagacccttc ccctggaacc agtggctggt
5161 gcggcccttg ctgcggctgt cactggtcaa aataatataa ttgatccctg gattagaaca
5221 aattttgtac aagcacccaa tggggagttc actgtctcac ccaggaattc cccaggagaa
5281 gttctcctaa atctagaatt aggtcctgat ttaaacccct atttggcaca cttatctaga
5341 atgtacaatg ggtatgctgg tggagtggag gtccaggttc tcctagcagg gaacgcgttc
5401 accgctggaa agatcctctt cgctgccgta ccgccaaatt tcccagttga attcttaagt
5461 cctgcccaaa ttactatgct cccacatttg atagttgatg ttaggaccct tgaaccaatt
5521 atgatacccc tccccgatgt gagaaacacc ttcttccatt acaacaatag gccctctgag
5581 cgcatgcgtt tagtggccat gttgtacaca cccctgagat ccaacggttc aggtgatgat
5641 gtcttcacag tctcatgcag agtactaact aggcctactc cagattttga gtttacttac
5701 ctagttccac cctcagtgga gtctaagaca aaacctttct cccttcccat cttaaccatt
5761 tctgagttaa ctaattcaag gtttccagca cccattgact cgttgtttac tgcccaaaac
5821 aacaatctca atgtccaatg ccagaatggt cggtgcacac tggatggtga gttgcaggga
5881 actacccagc tgctcccaac tggaatatgt gcattcagag ggaaaatatc ggcagatgtg
5941 caaagcagtc accaagacag gtggcacatg cagttgacaa atctcaatgg aaccccattt
6001 gacccaacag atgatgtccc agccccgctt ggcacccccg atttcacggg tctgctgttt
6061 ggagttgcaa gtcaaagaaa tgttggtgga gcaggcaaca acactaccag ggcccacgag
6121 gtagtgatag caacaactag cacacaattt gtaccaaaat tgggctctgt taattttgga
6181 agtgaaagtg atgattttca agtgggccca ccaaccaaat tcacaccagt tggaatcaaa
6241 gttgagaccg ggcatccgtt tagacaatgg gacctaccta actattctgg agcattgacc
6301 ctcaatatga atcttgcccc acctgttgcc ccaaacttcc caggagagca gctgctcttc
6361 tttagatcaa atgttccttg tgctggtggt gtcagtgagg gtatcattga ctgcctgttg
6421 cctcaagagt ggatacaaca tttctaccag gaatccgctc catcccaatc agatgtggca
6481 ctgatcagat atgtcaaccc tgatacgggc cgcactctct ttgaggcaaa acttcacagg
6541 actggttata ttactgtttc tcactctggt gactatcctc tagttgttcc ttccaatggc
6601 tatttcagat ttgattcttg ggtaaaccaa ttttactcac tcgcccccat gggaactggt
6661 aatgggcgca ggagagtgca gtaatggcag gagcttttat agcaggtctc gcaggtgaca
6721 tgctcacctc tgctgtaggc tcattggcga atgccggagc aaatgccata acccagaaaa
6781 ttgactttga aaacaataaa caacttcaaa cagcctcctt ccagcatgac aaggatatgc
6841 tccgcgcaca agtggatgca accaaacagc tgcaggcaga aatgattgct atcaagcaag
6901 ggatcttgac cgctggcggc ttctcccctg ctgacgcagc aagaggggct gtaggagcac
6961 ccatgaccaa ggtgcttgac tggtctggca cacgctattg ggcaccaaat tctaccaaaa
7021 caacaagtta ctctgggcag ttcacatcaa cgcctgtgca tacaccaaat tttaataaca
7081 agcccaggcc tcctgtcaaa acccagccct ctccttcttc ttctggtagt gtttatagtc
7141 tttcaactca atcaactcca ctccctggat cctcttcttc gggttcatct gtttcttctg
7201 tctcaacaca atcaacaaaa ttgagttcag tctcctctat gagtagaaca gcagattggg
7261 ttaatcaaca aaggagcctc agtccttata tgagcggggc ccttaatatt tcccatgtga
7321 cacctccgtc aagcagggct tcaagttcgg gaacagtctc aactgtgccc aaagaagttt
7381 tggactcctg gacatctgca tttaacacac gcagacagcc gctcttcgca cacctcagag
7441 tgagggggga gtcacgtgtt tagtgaaaag aaccaattaa ttttaattag ttgaaattta
7501 attggatctt tt
//