Typing tool
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Typing tool
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Complete norovirus genomes
| MZ268408 | GII.13 | |
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| GII.P16 |
ORF1: 5..5101
ORF2: 5082..6710
ORF3: 6710..7441
LOCUS MZ268408 7494 bp RNA linear VRL 29-MAY-2021
DEFINITION Norovirus GII isolate Hu/US/2013/GII.13[P16]/CA-RGDS-1121, complete
genome.
ACCESSION MZ268408
VERSION MZ268408.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7494)
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..7494
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="CA-RGDS-1121"
/isolate="Hu/US/2013/GII.13[P16]/CA-RGDS-1121"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="26-Apr-2013"
/note="Amplicon sequencing: first 35 nt does represent
primer sequence;
genotype: GII.13[P16]"
gene 5..5101
/gene="ORF1"
CDS 5..5101
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QVR43911.1"
/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 5..997
/gene="ORF1"
/product="p48"
mat_peptide 998..2095
/gene="ORF1"
/product="NTPase"
mat_peptide 2096..2626
/gene="ORF1"
/product="p22"
mat_peptide 2627..3025
/gene="ORF1"
/product="VPg"
mat_peptide 3026..3568
/gene="ORF1"
/product="Pro"
mat_peptide 3569..5098
/gene="ORF1"
/product="RdRp"
gene 5082..6710
/gene="ORF2"
CDS 5082..6710
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QVR43912.1"
/translation="MKMASNDAAPSNDGAASLVPEAINETMPLEPVAGASIAAPVAGQ
TNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAIPPNFPVDMISPAQITMLPHLIVDVRTLEPIMIPLPD
VRNVFYHFNNQPQPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFIYLVPP
SVESKTKPFTLPILTISELTNSRFPIPIEQLYTAPNENNVVQCQNGRCTLDGELQGTT
QLLSSAVCSYRGRTVANSGDNWDQNLLQLTYPSGAGYDPTDEVPAPLGTQDFSGILYG
VLTQDNVSEGTGEAKNAKGVYISTTSGRFTPKIGTIGLHSITENVHPNQQSRFTPVGV
AQNENTPFQQWVLPHYAGALALNTNLAPAVAPTFPGEQLLFFRSRVPCVQGLRGQDAF
IDCLLPQEWVNHFYQEAAPSQADVALIRYVNPDTGRTLFEAKLHRSGFITVSHTGTYP
LVVPPNGHFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6710..7441
/gene="ORF3"
CDS 6710..7441
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QVR43913.1"
/translation="MAGAFIAGLAGDMLTSAVGSLTSAGANAINQKLNFDYNKQLQNA
SFQHDKEMLQAQIDATKKLQSEMIAIKHGVLTAGGFSPADAARGAVNAPMTRVLDWSG
TRYYAPNSVQTTSYSGQFTPSPVHRAQVKSPSNSSQRTAAPSSIRSLSTQSTSLGSTS
SGGSSITSSSSRTADWVQQQRALSPYMQGALQTAYVTPPSSRASSMSSVSTVPKGVLD
SWTPVFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gcttgcaaca acaacaacga
61 caaggaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc
121 cctcggggcc cggcccaaac agcctgcccc gagggacaac tcacaaaagc ccccaagacc
181 accaactccc gagttggtta agaggatacc ccctccccca cctaatggag aagaagaaga
241 accagtcatt aggtatgagg ttaagagtgg aatctctggc ctgcccgagc tcacaacagt
301 ccctcaaccg gatgtggcca acacggcatt cagtgtccca ccgctgagct tgagagaaaa
361 cagggaggcc aaggaaccgc tgacaggggc aatattagag atgtgggatg gagagatata
421 ccactatggc ctgtacgtgg agaaaggctt agtgttgggt gtgcacaaac cacctgcagc
481 tataagcatg gcaaaagtgg agctgacgcc gttgtcattg tactggcgtg tggtctacac
541 cccccaatac ctcatctccc ctgaaactct caggaggctc aacggagagg cattccctta
601 cactgccttt gacaacaact gctatgcctt ttgctgctgg gtgttagacc tcaatgactc
661 atggcttaac aggaggatgg tgcaaagaac aacaggcttc ttcagacctt accaagagtg
721 gaacagaaaa cccctgccca ctatggatga ctccaaaatc aagaaggtgg caaacatatt
781 cctgtgttca ttgtccacgt tgttcaccag acctataaaa gacctcatag gaaaaattaa
841 gccattgaac atcttgaaca tcctggcaac gtgtgactgg acattcgccg gaatagtgga
901 gtctctgata ttacttgctg aactctttgg agttttctgg acacccccag atgtgtctgc
961 tatgatcgct cctttacttg gagactacga gttgcaaggg ccagaagacc ttgccgttga
1021 gctcgtacct gtagtaatgg gagggattgg tttggtgttg ggattcacca aagagaaaat
1081 tggaaaaatg ttgtcctcag cagcatcaac gctcagggct tgtaaagatc ttggtgccta
1141 tggcttagag atactcaaat tgatcatgaa gtggttcttc ccaaagaaag aagaggccaa
1201 tgagctagcc atggtgagag ctatagagga tgctgtactg gatcttgagg caatagaaaa
1261 taatcacatg acaactctgt tgaaagacaa agacagccta gcgacctaca tgaaaacact
1321 agacatggag gaggaaaaag ccagaagatt gtccacaaaa tctgcatccc ctgacatagt
1381 tgggacgatc aacgccctgc tggctcgtat agcagcggct aggtcactag tccacagggc
1441 caaggaggag ttatctagca ggataagacc agtggttgtt atgatatctg gcaaaccagg
1501 gataggcaaa actcatttgg ccagggaggt ggcaagaaag gtggcatcca ctctcacagg
1561 ggatcaaaga gtcgggctca taccgaggaa cggtgtggac cattgggacg catacaaagg
1621 tgagagagtc gtgttgtggg acgactatgg catgagcaac cccattcatg atgctctgcg
1681 catacaagaa ttggctgata catgtcccct taccttaaat tgtgacagaa ttgaaaataa
1741 gggaaaagtt tttgacagtg aagtcataat aatcacaaca aaccttgcca acccggctcc
1801 acttgactat gtcaactttg aggcctgttc caggagaatt gacttcctgg tgtacgccga
1861 ggcaccagaa gtagaaaagg caaaacgaga ctttcctgga caaccagata tgtggaagga
1921 cgccttcaag tcggactttt cacacatcaa gttgcaactt gcacctcagg gcggttttga
1981 caagaatggc aacaccccac atgggaaagg agtgatgaag accctcacca ccggttccct
2041 gatcgcccgt gcatcaggct tactgcatga gaggatggat gaatttgaac tccaaggccc
2101 cacagtcacc accttcaatt ttgaccagaa cagaatcgct gcattcagac aattggctgc
2161 agaaaacaag tatggattgg tggacaccat gagagttggc aatcaattaa aaggggtgaa
2221 aactatggaa gaactcaaac aagcaatcaa gaatgtgatc atcaagaggt gccggatcat
2281 ctacggcggc tccacgtatg accttgaatc tgatggcaag ggcagagttc tggtggaaaa
2341 ggtcaagaac acctctgtgc agaccaacaa cgagttggcc ggagccctgc atcacctcaa
2401 acatgcccga atcaggtact atgtcaaatg tgtgcaagaa gcagtctact ctattataca
2461 aatcgccggc gttgcgtttg tcaccacacg catagtacgc cgcatgaaca tacaagagct
2521 ttggtcgaag ccaccattag atcaaaatga atcagaggct aaggaagagg cccccaagtc
2581 agaagatgac gagttcatca tatcttctaa ggacatcaag gaggaaggaa agaagggcaa
2641 aaacaaaact ggccgtggta agaaacatac tgcattctct agcaagggct tgagcgatga
2701 ggagtatgac gagtacaaga ggataagaga agagagaaat gggaagtact ctatagagga
2761 gtatcttcaa gacagagaca ggtactatga ggaactcgcc atcgccaagg ccacggaaga
2821 agacttctgt gaggaggagg agatcaaaat ccgtcagagg atcttccgtc ccaccaggaa
2881 gcaaaggaag gaagagaggg tcacactagg gctagtaact ggttcagaaa tcagaaaaag
2941 aaaccctgat gacttcaaac ctaaagggaa actgtgggct gatgacaaca gaagtgttga
3001 ctacaatgag aaactggact ttgaggcccc cccaagtata tggtctagga ttgtgagttt
3061 tggttctggt tggggcttct gggtgtcacc aagcctgttc ataacatcaa ctcatgtaat
3121 ccctgcaggc ataacagagg cgtttggagt ccccatcaaa caaatccagg tccacaaatc
3181 aggtgaattt tgccggttca gattcccaaa accaattaga tcagatgtga caggaatgat
3241 cttggaagaa ggtgcgcctg agggcaccgt ggcaaccgtg ctcatcaaac gccctaccgg
3301 agagctcatg ccccttgcag ccagaatggg aacacacgcg accatgaaaa ttcagggccg
3361 catggttggc ggacagatgg gtatgttgct cactggttca aacgctaaag gaatggattt
3421 gggaacaact cctggtgatt gtggctgtcc ctacatctac aaaaggggca atgactatat
3481 agtcattggg gtgcacacag cagcagcccg tggtggaaac accgtcatct gtgccacaca
3541 gggaagtgag ggtgaggcaa ctcttgaggg tggagatgac aaaggaacat actgtggggc
3601 acccattcta ggccctgggg gggcaccaaa attgagcacc aaaaccaaat tttggaggtc
3661 atcgaacacg cctcttccac cagggacgta tgagcctgcc tacctcggtg gccgtgaccc
3721 gcgtgttaag ggtgggccct ccttgcagca ggtgatgaga gaccagttga agccattcac
3781 cgagcccagg ggtaaacctc caagaccaag tgtgttggaa gcagccaaac aaaccatcat
3841 caatgtcctc gaacaaaccc tggaccctcc acaaaaatgg acatacgcac aggcgtgtgc
3901 ttcacttgac aaaaccacct ccagcgggca tccccaccac gtccgaaaga atgaattctg
3961 gaatggtgag accttcactg gtaaattggc agaccaagca tcaaaagcaa atctaatgtt
4021 tgaggaaggg aaacacatga caccagtgta tacagcagcc ctcaaggatg aactggtcaa
4081 gactgacaaa gtctatggaa agatcaagaa gagactgctc tggggctctg acttgtccac
4141 catgatccgg tgcgccaggt cctttggtgg gctcatggat gagatgaaag cacactgcat
4201 atcactccca gttcgagttg gcatgaacat gaatgaagat ggtccaataa tatttgagaa
4261 gcactccaga tataagtatc actatgatgc agattactcc cgctgggatt caacacaaca
4321 gagggcagta ctagcagcag ccttggagat catggtcagg ttctctgcag agccacaatt
4381 ggcacaaata gtcgctgagg atctgctggc ccccagtgtg gtagatgtag gagactttaa
4441 aatttcaata aatgaagggc tcccctctgg tgtaccatgc acttctcaat ggaattccat
4501 cgcacactgg ctgctaaccc tctgcgcctt gtctgaagtc accaaactgt cccctgacat
4561 tgtacaggca aattccatgt tctcatttta cggtgatgac gagattgtca gcaccgatat
4621 aaaattggac cctgaaaagt taaccaccaa attgaaggag tacggcctga aaccaactcg
4681 cccagacaaa accgagggac ccctgatcat cagtgaggat ctgaacggac ttactttcct
4741 ccggaggacg gtgactcgtg acccagctgg ctggtttgga aaattggacc aaagctcaat
4801 attgaggcag atgtactgga ctagaggacc aaatcatgaa gaccccaatg agacaatgat
4861 accccactct caaagaccca tacagctcat ggcactgctt ggtgaggcct cccttcacgg
4921 accctctttc tacagcaaaa ttagtaagtt ggtcataact gaactcaaag aaggtgggat
4981 ggacttttac gtgccaaggc aggaacccat gttcaggtgg atgaggtttt ctgacttgag
5041 cacgtgggag ggcgatcgca atctggctcc caattttgtg aatgaagatg gcgtcgaatg
5101 acgccgctcc atcgaatgat ggtgcagcta gtctcgtacc agaggccatt aatgagacta
5161 tgccattgga acccgttgct ggcgcatcta ttgctgcccc agtggcggga caaactaata
5221 taattgaccc ctggataaga acaaattttg tgcaagcccc taatggagag ttcacagtat
5281 caccgagaaa ttcccctgga gagattctat taaatttaga gttaggacca gatttgaatc
5341 cttatttggc ccatctatca aggatgtaca atggatatgc tggaggtgtt gaggtgcaag
5401 tgcttcttgc tgggaacgcg ttcacagcag gaaagatatt gtttgcagca atcccaccca
5461 actttcctgt agatatgatt agcccagctc aaattactat gcttccccat ttgattgtag
5521 atgttaggac attggaacct attatgatac ccttacctga tgttaggaat gtgttctatc
5581 attttaataa tcaaccccaa cctaggatga gattagtggc tatgctctat accccattga
5641 gatctaatgg ttcaggagat gatgtcttta ctgtgtcttg tagagtgttg actaggccaa
5701 cccctgattt tgaattcatt tacctagtgc ctccctctgt agagtccaaa actaaaccat
5761 tcacacttcc aatattgacc atttctgaac taaccaactc ccggtttccc atcccaattg
5821 agcaactgta cacggcccca aatgagaata atgttgtaca gtgtcaaaat ggaaggtgca
5881 ccttggatgg agagcttcag ggcaccaccc agctgctatc aagtgcagtt tgctcttaca
5941 ggggcaggac tgtggctaac agtggggaca attgggacca gaatttgctc cagctgacct
6001 acccaagcgg tgcaggctat gaccccactg atgaagtacc agcacccttg ggcacccaag
6061 atttcagtgg gatattgtat ggggtgttaa cccaagacaa tgtaagtgag ggtacagggg
6121 aggccaaaaa tgctaaggga gtatacatat ccaccaccag tggaagattc accccaaaaa
6181 ttgggacaat tggattgcat tcaataactg aaaatgtgca ccccaatcag caatcacggt
6241 tcacccccgt tggagtcgct cagaatgaaa acaccccctt ccagcaatgg gttctaccac
6301 actacgcagg tgctctcgct ctaaacacca atttggcacc cgctgttgcc ccgaccttcc
6361 ctggtgagca attactgttc ttcaggtccc gtgttccatg tgttcaaggt ctgcgggggc
6421 aggatgcttt catagattgt ctcctacctc aagagtgggt gaaccatttt tatcaagagg
6481 ctgctccctc ccaagcagac gttgccctca tcaggtacgt caaccctgat actggtcgca
6541 cgctgtttga ggccaaattg cacaggtcag gtttcattac tgtatcacac actggcactt
6601 accctcttgt ggtccccccg aatggtcatt tcaggtttga ttcttgggtt aaccaattct
6661 actcactcgc ccccatggga actggcaatg ggcgtagaag agttcaataa tggcaggagc
6721 atttatagct ggtctagccg gtgacatgct gacttctgct gttggttcac tgacctctgc
6781 aggagccaat gccatcaatc agaaattgaa ttttgattac aataaacaac tccaaaatgc
6841 atcctttcaa catgataagg aaatgttgca ggcccaaatt gatgctacaa agaagctcca
6901 atcagaaatg attgcaatta agcatggggt tttgaccgca ggcggctttt ccccagctga
6961 tgcagccaga ggggcagtca acgccccaat gactcgagtg ttggattggt cagggacacg
7021 ctactacgcc ccaaattctg tgcaaaccac cagttattct gggcaattca ccccctcgcc
7081 ggtccatcgg gcgcaggtga agtccccttc caattcatct cagcggactg cagctccaag
7141 cagtatccgc agcctgtcaa cccaatcaac ttctttaggc tccacctcct caggggggtc
7201 ctctataacc tcctctagtt cgaggacagc agactgggtg caacaacaaa gggctcttag
7261 cccgtacatg cagggagccc tgcaaacggc atatgtcaca ccgccgtcta gtagagcttc
7321 cagtatgagc tctgtctcaa cagtgcccaa aggggttttg gactcctgga cacctgtgtt
7381 caacacacgc aggcagccgc tgtttgcaca cctcaggaag aggggggagt cacaggctta
7441 gtgaaaagga taatcaactt ttaaatgtga ttttattttc cttttaaaaa aaaa
//