Typing tool
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Typing tool
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Complete norovirus genomes
| MZ291632 | GII.17 | |
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| GII.P17 |
ORF1: 1..5109
ORF2: 5090..6712
ORF3: 6712..7491
LOCUS MZ291632 7552 bp RNA linear VRL 30-MAY-2021
DEFINITION Norovirus GII isolate Hu/US/2015/GII.17[P17]/CA-RGDS-1129
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION MZ291632
VERSION MZ291632.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7552)
AUTHORS Pan,C.-Y., Huynh,T., Padilla,T., Montmayeur,A.M., Chhabra,P.,
Barclay,L., Vinje,J., Wadford,D.A. and Morales,C.
TITLE Direct Submission
JOURNAL Submitted (25-MAY-2021) Viral and Rickettsial Disease Laboratory,
California Department of Public Health, 850 Marina Bay Parkway,
Richmond, CA 94804, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. R10; SPades v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7552
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="CA-RGDS-1129"
/isolate="Hu/US/2015/GII.17[P17]/CA-RGDS-1129"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="03-May-2015"
/note="Amplicon sequencing: first 31 nt does represent
primer sequence;
genotype: GII.17[P17]"
gene 1..5109
/gene="ORF1"
CDS 1..5109
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QVV57752.1"
/translation="MKMASNDASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGAR
SKQPPPGETKQIQTPPRPPTPELVKRIPPPPPNGGDEPGIVYKVGEGVSGLPDLTTVV
QPDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPA
AISLAKIEITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDL
NDSWLSRRMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDI
IGKLRPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQG
PEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKW
FFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARK
LSTKSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLA
RELAKKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA
DTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPD
IEKAKRDFPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLI
ARASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSV
KTLDELKQAIKNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALH
HLRSARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDR
GGCPKPRDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE
RNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATL
GLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFW
VSPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA
PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTT
PGDCGCPYIYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAP
ILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPF
TEPRGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKN
DYWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWG
SDLSTMIRCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYS
RWDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGV
PCTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTA
KLKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWT
RGPNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVP
RQESMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 1..999
/gene="ORF1"
/product="p48"
mat_peptide 1000..2097
/gene="ORF1"
/product="NTPase"
mat_peptide 2098..2634
/gene="ORF1"
/product="p22"
mat_peptide 2635..3033
/gene="ORF1"
/product="VPg"
mat_peptide 3034..3576
/gene="ORF1"
/product="Pro"
mat_peptide 3577..5106
/gene="ORF1"
/product="RdRp"
gene 5090..6712
/gene="ORF2"
CDS 5090..6712
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QVV57753.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPTGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN
DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6712..7491
/gene="ORF3"
CDS 6712..7491
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QVV57754.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSMYTQST
HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgttgctg gcaaaaacaa caacaacgac
61 aaggaaaaat cttcaagtga cagcttgttt gctaacatgt ctgtcacttt taagaaagcc
121 ctcggggcgc ggtctaaaca accgcccccg ggagaaacaa aacaaataca aacaccacca
181 aggccaccga caccggaatt ggtgaagaga atacctccac ccccacccaa tggcggggat
241 gaaccaggga tagtgtacaa ggtgggagag ggtgtgtctg ggctgcccga cctaacaact
301 gtggtacaac ctgacgcaca aaacacagct tatagtgttc ccccacttag ccagagagaa
361 gtcggcgaag ctaaagaacc gctgcctggc tccattctgg aaatgtggga tggtgagatc
421 taccactatg ggctgtatgt tgagcggggg catgtgctcg gagtacacaa accacctgct
481 gcaataagcc ttgccaaaat tgaaataaca ccgctgtctc tctactggag agtggtctac
541 actccccagt atttgataga tccaggaact cttaagaact tgagtggaga gactttccca
601 tacacggcct ttgacaacaa ctgttatgcc ttctgttgtt gggtcctaga cctcaacgac
661 tcctggctta gcaggagaat gatccaaaga acaactggat tcttcaaacc ttatcaggat
721 tggaacagaa aacccttacc aaccatggat gaaccgaaaa tcaagaaggc cgcgaatgct
781 gtcctatgcg ctctctcctc actcttcact agacccatta aggacatcat tggaaagctt
841 agaccactga acattcttaa tatactggca acctgcgatt ggacttttgc aggcatagtg
901 gaatccttga tccttcttgc tgaactcttt ggggtgttct ggacaccccc agatgtgtct
961 gcgatgattg ctcccttact cggtgactac gagatgcaag gccccgaaga cctggccgtg
1021 gaacttgtgc ccgtggtgat gggaggaata ggtttggtgt taggattcac caaagaaaag
1081 atcggcaaga tgctttcatc agctgcgacc acacttaggg cctgcaagga tctaggatct
1141 tatggattgg agatactcaa attggtcatg aagtggttct tccccaagaa ggaggaggct
1201 aacgaactag ccatggtgag ggccattgag gatgcagtcc tggatttgga ggcaatagaa
1261 aacaatcaca tgaccaccct tctcaaggat aaagacagcc tggccacata catgaggact
1321 cttgacttgg aagaagagaa agcaaggaaa ctgtcaacca aatcggcgtc acctgacatc
1381 gtgggtacaa taaacgcatt attggctagg atagcagccg ccaggtcact ggtccacaag
1441 gctaaggagg agctctcgag cagacagaga cctgttgttg taatgatatc aggtagacca
1501 ggtataggaa agacccatct ggccagagag ctagccaaga aagttgcgtc aacactgtca
1561 ggcgaccaaa ggattggact ggtacctaga aatggcgtcg accattggga cgcctacaag
1621 ggagaaaggg tggtcctgtg ggatgattat ggtatgagca accctataca ggacgcactg
1681 aggctccaag aattggctga cacctgtcct ctgaccctaa attgtgatag gattgaaaac
1741 aaaggaaaag tgttcgacag tgatgccata attataacaa ccaaccttgc aaacccagca
1801 ccactagact atgtcaactt tgaggcctgc tctagacgca tagacttctt ggtgtatgca
1861 gacgcacctg acattgagaa ggctaagcgt gacttccctg gccaaccaga tatgtggaaa
1921 gaccatttca gaccagactt ctcacacatt aaacttcagc tggcaccaca gggaggtttt
1981 gacaaaaatg gcaacacccc acatggcaaa ggtgtggtga agtccctgac gattggttct
2041 ctgatcgcca gggcctccgg cttgctccac gagagaatgg atgaattcga gctccaaggc
2101 tctgacctgc caaccttcaa ttttgaccgc aacaaagtcg ccgccttcag acaattagca
2161 gctgaaaaca aatatggtct tatggacaca ttgagggtcg gcaaccaact gaaaagtgtt
2221 aagaccctgg atgagctgaa gcaggccata aagaacatca gtatcaagaa gtgtcagata
2281 gtgtataatg gatgcaccta caccatggaa tctgatggga ggggcaaggt tgtggttgaa
2341 aaggtacaaa acgcaacagt tcaaaccaac aatgaacttg taggggcgct ccaccacctg
2401 agatctgcaa ggataagata ctatgttaaa tgtttccaag aagccattta ctctctactc
2461 caaattgctg gtgcagcctt cgtcacctca cgcatcgtga ggcgcatgaa catatcaaac
2521 ctctggtcga agccacccat cgaggagggt gatgagcctg aagacagagg aggatgcccc
2581 aagcccaggg atgaagatga cctcactatt gactctagag acattaaagt ggaagggaag
2641 aagggcaaga acaagtctgg ccggggcaag aaacacacag ccttctcttc caagggcctc
2701 agtgatgaag agtacgatga gtacaagaga atcagagagg agaggaatgg caaatactca
2761 atagaggaat acctccaaga tagggacaga tactatgaag agcttgccat tgctaaggcc
2821 actgaggagg acttctgtga ggaggaggag atcaaaatcc gccagagaat cttccgaccc
2881 accaggaagc agcggaaaga ggaaagggcc acgcttgggc ttgtcacagg atcggaaatc
2941 agaaagagga atccagatga ctttaaacca aaaggaaaat tgtgggctga tgacaacagg
3001 agcgtggatt acaatgagag gatagatttt gaggctcccc cgagtgtttg gtctaggata
3061 gtcaactttg gcacaggctg gggattctgg gtttctccaa gtctctttat aacttcaaca
3121 cacgtcatac caaaaggaat cactgaggcc tttggagtgc ccataaacca aatccaaatt
3181 cacaaatctg gagaattttg ccgcttgcgg tttccaaagc caattagacc agacgtgagt
3241 gggatgatct tggaagaggg cgcccctgaa ggcactgttg tgtctattct catcaaaagg
3301 acaacagggg agctgatgcc tcttgcagtc agaatgggga ctcatgccac aatgaaaatc
3361 caaggtagaa cggtgggtgg tcagatgggt atgcttctca ctggctcaaa tgctaaaagc
3421 atggatctag gcacaacgcc aggtgactgc ggatgtccat acatatacaa aaggggcaat
3481 gaccttgtgg tcattggggt gcacactgca gcagctcgtg gaggcaacac ggtcatatgt
3541 gccacacagg gaagtgaagg tgaagccact cttgaaggag gtgacaacaa gggtacctat
3601 tgtggagccc ccattttggg acctggcaat gcaccaaaat tgagcacaaa gacaaaattc
3661 tggagatcct ctaacgcacc gcttccccca ggtacttatg aaccagcata ccttggtggg
3721 agagacccgc gcgtgaaggg aggcccatct ctgcaacaag ttatgagaga ccaacttaaa
3781 ccttttacag agcccagagg gaagccacca aacccaaatg tcttagagtc agcaaagaag
3841 actatcatca atgttctgga acaaaccatt gacccccctc aaaagtggtc atatgcccaa
3901 gcttgtgcat ccctcgacaa gacaacctcc agtggatacc cgcaccacgt ccggaagaat
3961 gactattgga gtggtgaatc cttcacagga aaacttgcag atcaggcttc aaaagcaaat
4021 ctcatgtatg aggaaggcaa gcacatgcaa ccagtttaca ccgcagcact caaagacgag
4081 ctcgtgaaaa ctgacaaaat ttatggcaaa atcaagaaaa gactcctgtg gggttctgac
4141 ctctccacaa tgattcgatg cgccagagca tttggtggtc tcatggatga attcaaagca
4201 aattgtatta cactccctat cagagttggt atgaatatga atgaagatgg tcccataata
4261 tttgagaaac actccaggta caggtaccac tatgatgctg attactcccg ctgggactcc
4321 acacaacagc gggcagtgct ggaagcggca cttgaaatca tggtgagatt ttctgctgag
4381 ccacagctgg cacaaatagt ggcagaggac ctgctgtcac caagtgtggt tgatgtgggc
4441 gatttcaaaa tcgctatcaa tgaaggccta ccatctggcg tgccttgcac ctcacaatgg
4501 aattctattg cccactggtt acttaccttg tgtgcccttt ctgaagtgac aggattaggt
4561 cctgacatca tacaagctaa ctccatgtac tctttctatg gtgatgatga gattgtgagc
4621 acagacataa aattggaccc agagaaattg accgcaaagc tcaaagaata tggccttaaa
4681 cccactcggc ccgacaaaac tgaggggccg ttggtgatta gtgaggacct gaatgggttg
4741 actttcctcc gccgaacagt cacccgtgat ccagcaggtt ggtttggaaa gttggaccaa
4801 aactccatcc tcaggcagtt gtactggaca agaggaccca accatgaaga ccccagtgag
4861 accatgatac cacacgcaca aagacctgtg cagctcatgg cactactagg agaatcctcc
4921 ctacatggac cctcatttta cagcaaggtt agcaaattag tcatatctga acttaaagag
4981 ggaggaatgg atttttatgt gcccagacaa gagtcaatgt tcagatggat gaggttctca
5041 gatctaagca catgggaggg cgatcgcaat ctggctccca gttttgtgaa tgaagatggc
5101 gtcgaatgac gccgctccat ctaatgatgg tgctgctggt ctcgtaccag agggcaacaa
5161 cgagaccctt cccctagaac cagttgcggg cgcagctata gccgcacccg tcactggcca
5221 aaataatata attgacccct ggattagaac aaattttgtg caagcaccaa atggagagtt
5281 cacagtgtca cccagaaact ctcctggaga aattttatta aatttagagt tgggccctga
5341 tttgaaccct tatttggctc atttgtcaag gatgtacaat gggtatgctg gtggagtgga
5401 agttcaggtt ctcctggcag ggaacgcgtt cactgccgga aagatcctct tcgccgccgt
5461 cccgccaaat ttcccagtgg aattcttaag cccagcccag atcacaatgc tcccacattt
5521 aatagtagat gttaggactc ttgaaccaat tatgatccca ctccctgatg ttaggaatac
5581 attcttccat tatagtaacc agcctaacag ccgcatgaga ttagtggcta tgctctatac
5641 cccactcaga tctaatggct caggtgatga tgtctttact gtctcttgca gggttttgac
5701 taggcctact cctgattttg agttcactta tttagtgcca ccttctgttg aatctaaaac
5761 taagcctttt tccttaccta ttttaaccct ttctgagctc acaaattcga ggtttccagt
5821 ccccatcgat tcgcttttca ccgcccagaa taatgtgttg caggtgcagt gtcaaaatgg
5881 caggtgtaca cttgatggtg agttacaagg cacaacccag ttgctcccaa ctggcatctg
5941 tgcattcaga ggacgggtga cagcacaaat taaccaacgt gacaggtggc acatgcaact
6001 gcaaaacctc aatggtacaa catatgaccc aactgatgat gtgccagccc cgctgggtac
6061 acctgacttc aagggcgtcg tgtttgggat ggtaagccaa agaaatgtgg gtaatgatgc
6121 gcctggctca accagagccc aacaggcgtg ggtttcaacc tatagccccc aatttgtccc
6181 caaattaggt tctgtcaatc ttagaattag tgataatgat gatttccaat tccagccgac
6241 aaaattcaca ccagtgggcg tcaatgatga cgatgatggc cacccgttca gacaatggga
6301 actaccaaac tattcagggg agcttacctt gaatatgaat cttgcccccc cagttgctcc
6361 aaattttcct ggtgaacaat tgttattctt cagatctttc gtgccatgct caggaggtta
6421 caaccaaggt attatagatt gtcttattcc ccaagaatgg atccaacact tctatcagga
6481 gtcagcaccc tcccagtcag acgtggccct aatcaggtat gtcaaccccg atacggggcg
6541 tacactgttt gaagcaaaat tgcacagatc tggttacatt actgtggctc actctggaga
6601 ctatcctctt gttgttccgg ctaatggaca ctttagattt gattcttggg taaatcagtt
6661 ttactcactc gccccaatgg gaactgggaa tgggcgaagg agggctcagt aatggctggg
6721 gctttcattg caggattggc aggcgacatg ctcacgtcat ctgtgggctc ccttgtgaac
6781 gcaggggcaa acgccatcaa ccaaaagata gactttgaaa acaacaaaca actccagtct
6841 gcttcctttc agcatgataa agagatgctc caagcgcagg tgagggcaac caagcagctg
6901 caatctgaaa tgatagccct aaaacagggg gttttggccg caggcggctt ttcccccact
6961 gatgcagcaa ggggatccat tggtgcaccc atgacaaagg tgcttgactg gtctggcact
7021 cgatactggg cgcccaattc cacaaagaca actggctatt cgggacaatt cacctcttca
7081 cctgtgcata tgtctagccc aaatgctcca caatcaaaac ctgcaaagcc taggtctcta
7141 gctccttcct cttcttctag cagtgtctat agtatgtata ctcaatctac tcatttaaca
7201 tctggctctt ctagtaatgc ttcttctgcc tccacaaaat tgacaaattt aagctctggc
7261 tcctctcaaa acagaacagc agagtgggta aatcaacaga gaagtcttag ccctttcatg
7321 agtggcgcac ttaacatctc acatgtcacg ccaccctcaa gtagggcttc cagttctggg
7381 acggtctcga ccgtgcccaa ggaagttttg gactcctgga cgtctgcgtt taacacacac
7441 agacagccgc tcttcgcaca cctcagagtg aggggggagt cacgtgttta gtgaaaagaa
7501 ataattggct ataatgtgat ttctttctaa atttggctaa tttgtatctt tt
//