Typing tool
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Typing tool
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Complete norovirus genomes
| MZ268407 | GII.13 | |
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| GII.P16 |
ORF1: 1..5097
ORF2: 5078..6706
ORF3: 6706..7437
LOCUS MZ268407 7450 bp RNA linear VRL 29-MAY-2021
DEFINITION Norovirus GII isolate Hu/US/2013/GII.13[P16]/CA-RGDS-1120
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION MZ268407
VERSION MZ268407.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7450)
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 (21-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..7450
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="CA-RGDS-1120"
/isolate="Hu/US/2013/GII.13[P16]/CA-RGDS-1120"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="26-Apr-2013"
/note="Amplicon sequencing: first 31 nt does represent
primer sequence;
genotype: GII.13[P16]"
gene 1..5097
/gene="ORF1"
CDS 1..5097
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QVR43905.1"
/translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDNSQKPPRPPTPELVKRIPPPPPNGEEEEPVIRYEVKSGISGLPELTTVPQP
DVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAI
SMAKVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLND
SWLNRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIG
KIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPE
DLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLIMKWFF
PKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLS
TKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLARE
VARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADT
CPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVE
KAKRDFPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIAR
ASGLLHERMDEFELQGPTVTTFNFDQNRIAAFRQLAAENKYGLVDTMRVGNQLKGVKT
MEELKQAIKNVIIKRCRIIYGGSTYDLESDGKGRVLVEKVKNTSVQTNNELAGALHHL
KHARIRYYVKCVQEAVYSIIQIAGVAFVTTRIVRRMNIQELWSKPPLDQNESEAKEEA
PKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERVTLGLVT
GSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPS
LFITSTHVIPAGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRSDVTGMILEEGAPEGT
VATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDC
GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGP
GGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWN
GETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTDKVYGKIKKRLLWGSDLS
TMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS
TQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKISINEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTKLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLKE
YGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPN
HEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 1..993
/gene="ORF1"
/product="p48"
mat_peptide 994..2091
/gene="ORF1"
/product="NTPase"
mat_peptide 2092..2622
/gene="ORF1"
/product="p22"
mat_peptide 2623..3021
/gene="ORF1"
/product="VPg"
mat_peptide 3022..3564
/gene="ORF1"
/product="Pro"
mat_peptide 3565..5094
/gene="ORF1"
/product="RdRp"
gene 5078..6706
/gene="ORF2"
CDS 5078..6706
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QVR43906.1"
/translation="MKMASNDAAPSNDGAASLVPEAINETMPLEPVAGASIAAPVAGQ
TNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAIPPNFPVDMISPAQITMLPHLIVDVRTLEPIMIPLPD
VRNVFYHFNNQPQPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFIYLVPP
SVESKTKPFTLPILTISELTNSRFPIPIEQLYTAPNENNVVQCQNGRCTLDGELQGTT
QLLSSAVCSYRGRTVANSGDNWDQNLLQLTYPSGAGYDPTDEVPAPLGTQDFSGILYG
VLTQDNVSEGTGEAKNAKGVYISTTSGRFTPKIGTIGLHSITENVHPNQQSRFTPVGV
AQNENTPFQQWVLPHYAGALALNTNLAPAVAPTFPGEQLLFFRSRVPCVQGLRGQDAF
IDCLLPQEWVNHFYQEAAPSQADVALIRYVNPDTGRTLFEAKLHRSGFITVSHTGTYP
LVVPPNGHFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6706..7437
/gene="ORF3"
CDS 6706..7437
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QVR43907.1"
/translation="MAGAFIAGLAGDMLTSAVGSLTSAGANAINQKLNFDYNKQLQNA
SFQHDKEMLQAQIDATKKLQSEMIAIKHGVLTAGGFSPADAARGAVNAPMTRVLDWSG
TRYYAPNSVQTTSYSGQFTPSPVHRAQVKSPSNSSQRTAAPSSIRSLSTQSTSLGSTS
SGGSSITSSSSRTADWVQQQRALSPYMQGALQTAYVTPPSSRASSMSSVSTVPKGVLD
SWTPVFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgttgctt gcaacaacaa caacgacaag
61 gaaaaatctt caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaagccctc
121 ggggcccggc ccaaacagcc tgccccgagg gacaactcac aaaagccccc aagaccacca
181 actcccgagt tggttaagag gataccccct cccccaccta atggagaaga agaagaacca
241 gtcattaggt atgaggttaa gagtggaatc tctggcctgc ccgagctcac aacagtccct
301 caaccggatg tggccaacac ggcattcagt gtcccaccgc tgagcttgag agaaaacagg
361 gaggccaagg aaccgctgac aggggcaata ttagagatgt gggatggaga gatataccac
421 tatggcctgt acgtggagaa aggcttagtg ttgggtgtgc acaaaccacc tgcagctata
481 agcatggcaa aagtggagct gacgccgttg tcattgtact ggcgtgtggt ctacaccccc
541 caatacctca tctcccctga aactctcagg aggctcaacg gagaggcatt cccttacact
601 gcctttgaca acaactgcta tgccttttgc tgctgggtgt tagacctcaa tgactcatgg
661 cttaacagga ggatggtgca aagaacaaca ggcttcttca gaccttacca agagtggaac
721 agaaaacccc tgcccactat ggatgactcc aaaatcaaga aggtggcaaa catattcctg
781 tgttcattgt ccacgttgtt caccagacct ataaaagacc tcataggaaa aattaagcca
841 ttgaacatct tgaacatcct ggcaacgtgt gactggacat tcgccggaat agtggagtct
901 ctgatattac ttgctgaact ctttggagtt ttctggacac ccccagatgt gtctgctatg
961 atcgctcctt tacttggaga ctacgagttg caagggccag aagaccttgc cgttgagctc
1021 gtacctgtag taatgggagg gattggtttg gtgttgggat tcaccaaaga gaaaattgga
1081 aaaatgttgt cctcagcagc atcaacgctc agggcttgta aagatcttgg tgcctatggc
1141 ttagagatac tcaaattgat catgaagtgg ttcttcccaa agaaagaaga ggccaatgag
1201 ctagccatgg tgagagctat agaggatgct gtactggatc ttgaggcaat agaaaataat
1261 cacatgacaa ctctgttgaa agacaaagac agcctagcga cctacatgaa aacactagac
1321 atggaggagg aaaaagccag aagattgtcc acaaaatctg catcccctga catagttggg
1381 acgatcaacg ccctgctggc tcgtatagca gcggctaggt cactagtcca cagggccaag
1441 gaggagttat ctagcaggat aagaccagtg gttgttatga tatctggcaa accagggata
1501 ggcaaaactc atttggccag ggaggtggca agaaaggtgg catccactct cacaggggat
1561 caaagagtcg ggctcatacc gaggaacggt gtggaccatt gggacgcata caaaggtgag
1621 agagtcgtgt tgtgggacga ctatggcatg agcaacccca ttcatgatgc tctgcgcata
1681 caagaattgg ctgatacatg tccccttacc ttaaattgtg acagaattga aaataaggga
1741 aaagtttttg acagtgaagt cataataatc acaacaaacc ttgccaaccc ggctccactt
1801 gactatgtca actttgaggc ctgttccagg agaattgact tcctggtgta cgccgaggca
1861 ccagaagtag aaaaggcaaa acgagacttt cctggacaac cagatatgtg gaaggacgcc
1921 ttcaagtcgg acttttcaca catcaagttg caacttgcac ctcagggcgg ttttgacaag
1981 aatggcaaca ccccacatgg gaaaggagtg atgaagaccc tcaccaccgg ttccctgatc
2041 gcccgtgcat caggcttact gcatgagagg atggatgaat ttgaactcca aggccccaca
2101 gtcaccacct tcaattttga ccagaacaga atcgctgcat tcagacaatt ggctgcagaa
2161 aacaagtatg gattggtgga caccatgaga gttggcaatc aattaaaagg ggtgaaaact
2221 atggaagaac tcaaacaagc aatcaagaat gtgatcatca agaggtgccg gatcatctac
2281 ggcggctcca cgtatgacct tgaatctgat ggcaagggca gagttctggt ggaaaaggtc
2341 aagaacacct ctgtgcagac caacaacgag ttggccggag ccctgcatca cctcaaacat
2401 gcccgaatca ggtactatgt caaatgtgtg caagaagcag tctactctat tatacaaatc
2461 gccggcgttg cgtttgtcac cacacgcata gtacgccgca tgaacataca agagctttgg
2521 tcgaagccac cattagatca aaatgaatca gaggctaagg aagaggcccc caagtcagaa
2581 gatgacgagt tcatcatatc ttctaaggac atcaaggagg aaggaaagaa gggcaaaaac
2641 aaaactggcc gtggtaagaa acatactgca ttctctagca agggcttgag cgatgaggag
2701 tatgacgagt acaagaggat aagagaagag agaaatggga agtactctat agaggagtat
2761 cttcaagaca gagacaggta ctatgaggaa ctcgccatcg ccaaggccac ggaagaagac
2821 ttctgtgagg aggaggagat caaaatccgt cagaggatct tccgtcccac caggaagcaa
2881 aggaaggaag agagggtcac actagggcta gtaactggtt cagaaatcag aaaaagaaac
2941 cctgatgact tcaaacctaa agggaaactg tgggctgatg acaacagaag tgttgactac
3001 aatgagaaac tggactttga ggccccccca agtatatggt ctaggattgt gagttttggt
3061 tctggttggg gcttctgggt gtcaccaagc ctgttcataa catcaactca tgtaatccct
3121 gcaggcataa cagaggcgtt tggagtcccc atcaaacaaa tccaggtcca caaatcaggt
3181 gaattttgcc ggttcagatt cccaaaacca attagatcag atgtgacagg aatgatcttg
3241 gaagaaggtg cgcctgaggg caccgtggca accgtgctca tcaaacgccc taccggagag
3301 ctcatgcccc ttgcagccag aatgggaaca cacgcgacca tgaaaattca gggccgcatg
3361 gttggcggac agatgggtat gttgctcact ggttcaaacg ctaaaggaat ggatttggga
3421 acaactcctg gtgattgtgg ctgtccctac atctacaaaa ggggcaatga ctatatagtc
3481 attggggtgc acacagcagc agcccgtggt ggaaacaccg tcatctgtgc cacacaggga
3541 agtgagggtg aggcaactct tgagggtgga gatgacaaag gaacatactg tggggcaccc
3601 attctaggcc ctgggggggc accaaaattg agcaccaaaa ccaaattttg gaggtcatcg
3661 aacacgcctc ttccaccagg gacgtatgag cctgcctacc tcggtggccg tgacccgcgt
3721 gttaagggtg ggccctcctt gcagcaggtg atgagagacc agttgaagcc attcaccgag
3781 cccaggggta aacctccaag accaagtgtg ttggaagcag ccaaacaaac catcatcaat
3841 gtcctcgaac aaaccctgga ccctccacaa aaatggacat acgcacaggc gtgtgcttca
3901 cttgacaaaa ccacctccag cgggcatccc caccacgtcc gaaagaatga attctggaat
3961 ggtgagacct tcactggtaa attggcagac caagcatcaa aagcaaatct aatgtttgag
4021 gaagggaaac acatgacacc agtgtataca gcagccctca aggatgaact ggtcaagact
4081 gacaaagtct atggaaagat caagaagaga ctgctctggg gctctgactt gtccaccatg
4141 atccggtgcg ccaggtcctt tggtgggctc atggatgaga tgaaagcaca ctgcatatca
4201 ctcccagttc gagttggcat gaacatgaat gaagatggtc caataatatt tgagaagcac
4261 tccagatata agtatcacta tgatgcagat tactcccgct gggattcaac acaacagagg
4321 gcagtactag cagcagcctt ggagatcatg gtcaggttct ctgcagagcc acaattggca
4381 caaatagtcg ctgaggatct gctggccccc agtgtggtag atgtaggaga ctttaaaatt
4441 tcaataaatg aagggctccc ctctggtgta ccatgcactt ctcaatggaa ttccatcgca
4501 cactggctgc taaccctctg cgccttgtct gaagtcacca aactgtcccc tgacattgta
4561 caggcaaatt ccatgttctc attttacggt gatgacgaga ttgtcagcac cgatataaaa
4621 ttggaccctg aaaagttaac caccaaattg aaggagtacg gcctgaaacc aactcgccca
4681 gacaaaaccg agggacccct gatcatcagt gaggatctga acggacttac tttcctccgg
4741 aggacggtga ctcgtgaccc agctggctgg tttggaaaat tggaccaaag ctcaatattg
4801 aggcagatgt actggactag aggaccaaat catgaagacc ccaatgagac aatgataccc
4861 cactctcaaa gacccataca gctcatggca ctgcttggtg aggcctccct tcacggaccc
4921 tctttctaca gcaaaattag taagttggtc ataactgaac tcaaagaagg tgggatggac
4981 ttttacgtgc caaggcagga acccatgttc aggtggatga ggttttctga cttgagcacg
5041 tgggagggcg atcgcaatct ggctcccaat tttgtgaatg aagatggcgt cgaatgacgc
5101 cgctccatcg aatgatggtg cagctagtct cgtaccagag gccattaatg agactatgcc
5161 attggaaccc gttgctggcg catctattgc tgccccagtg gcgggacaaa ctaatataat
5221 tgacccctgg ataagaacaa attttgtgca agcccctaat ggagagttca cagtatcacc
5281 gagaaattcc cctggagaga ttctattaaa tttagagtta ggaccagatt tgaatcctta
5341 tttggcccat ctatcaagga tgtacaatgg atatgctgga ggtgttgagg tgcaagtgct
5401 tcttgctggg aacgcgttca cagcaggaaa gatattgttt gcagcaatcc cacccaactt
5461 tcctgtagat atgattagcc cagctcaaat tactatgctt ccccatttga ttgtagatgt
5521 taggacattg gaacctatta tgataccctt acctgatgtt aggaatgtgt tctatcattt
5581 taataatcaa ccccaaccta ggatgagatt agtggctatg ctctataccc cattgagatc
5641 taatggttca ggagatgatg tctttactgt gtcttgtaga gtgttgacta ggccaacccc
5701 tgattttgaa ttcatttacc tagtgcctcc ctctgtagag tccaaaacta aaccattcac
5761 acttccaata ttgaccattt ctgaactaac caactcccgg tttcccatcc caattgagca
5821 actgtacacg gccccaaatg agaataatgt tgtacagtgt caaaatggaa ggtgcacctt
5881 ggatggagag cttcagggca ccacccagct gctatcaagt gcagtttgct cttacagggg
5941 caggactgtg gctaacagtg gggacaattg ggaccagaat ttgctccagc tgacctaccc
6001 aagcggtgca ggctatgacc ccactgatga agtaccagca cccttgggca cccaagattt
6061 cagtgggata ttgtatgggg tgttaaccca agacaatgta agtgagggta caggggaggc
6121 caaaaatgct aagggagtat acatatccac caccagtgga agattcaccc caaaaattgg
6181 gacaattgga ttgcattcaa taactgaaaa tgtgcacccc aatcagcaat cacggttcac
6241 ccccgttgga gtcgctcaga atgaaaacac ccccttccag caatgggttc taccacacta
6301 cgcaggtgct ctcgctctaa acaccaattt ggcacccgct gttgccccga ccttccctgg
6361 tgagcaatta ctgttcttca ggtcccgtgt tccatgtgtt caaggtctgc gggggcagga
6421 tgctttcata gattgtctcc tacctcaaga gtgggtgaac catttttatc aagaggctgc
6481 tccctcccaa gcagacgttg ccctcatcag gtacgtcaac cctgatactg gccgcacgct
6541 gtttgaggcc aaattgcaca ggtcaggttt cattactgta tcacacactg gcacttaccc
6601 tcttgtggtc cccccgaatg gtcatttcag gtttgattct tgggttaacc aattctactc
6661 actcgccccc atgggaactg gcaatgggcg tagaagagtt caataatggc aggagcattt
6721 atagctggtc tagccggtga catgctgact tctgctgttg gttcactgac ctctgcagga
6781 gccaatgcca tcaatcagaa attgaatttt gattacaata aacaactcca aaatgcatcc
6841 tttcaacatg ataaggaaat gttgcaggcc caaattgatg ctacaaagaa gctccaatca
6901 gaaatgattg caattaagca tggggttttg accgcaggcg gcttttcccc agctgatgca
6961 gccagagggg cagtcaacgc cccaatgact cgagtgttgg attggtcagg gacacgctac
7021 tacgccccaa attctgtgca aaccaccagt tattctgggc aattcacccc ctcgccggtc
7081 catcgggcgc aggtgaagtc cccttccaat tcatctcagc ggactgcagc tccaagcagt
7141 atccgcagcc tgtcaaccca atcaacttct ttaggctcca cctcctcagg ggggtcctct
7201 ataacctcct ctagttcgag gacagcagac tgggtgcaac aacaaagggc tcttagcccg
7261 tacatgcagg gagccctgca aacggcatat gtcacaccgc cgtctagtag ggcttccagt
7321 atgagctctg tctcaacagt gcccaaaggg gttttggact cctggacacc tgtgttcaac
7381 acacgcaggc agccgctgtt tgcacacctc aggaagaggg gggagtcaca ggcttagtga
7441 aaaggataat
//