Typing tool
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Typing tool
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Complete norovirus genomes
| OP690427 | GII.12 | |
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| GII.P16 |
ORF1: 5..5104
ORF2: 5085..6692
ORF3: 6692..7471
LOCUS OP690427 7527 bp RNA linear VRL 25-OCT-2022
DEFINITION Norovirus GII isolate Hu/US/2021/GII.12[P16]/CA-RGDS-1154, complete
genome.
ACCESSION OP690427
VERSION OP690427.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7527)
AUTHORS Pan,C.-Y., Hatada,A., Morales,C., Montmayeur,A.M., Chhabra,P. and
Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (20-OCT-2022) 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..7527
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="CA0RGDS-1154"
/isolate="Hu/US/2021/GII.12[P16]/CA-RGDS-1154"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA: CA"
/collection_date="Apr-2021"
/note="Amplicon sequencing:first 35 nt does represent
primer sequence;
genotype: GII.12[P16]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="UYL33176.1"
/translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDKPQRPPRPPTPELVKRIPSPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMAKVELTPLSLYWRVVYTPQYLISPDTLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILFAELFGVFWTPPDVSAIIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTALLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDV
EKAKRDFPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIVYGGSTYDLESDGKGKVLVEKVKNASVQTNNELAGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE
APKPEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPEDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPTGITEAFGVPIKQVQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFIEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPYHVRKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYNYHYDADYSRWD
STQQRAVLAAALEVMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 5..1000
/gene="ORF1"
/product="p48"
mat_peptide 1001..2098
/gene="ORF1"
/product="NTPase"
mat_peptide 2099..2629
/gene="ORF1"
/product="p22"
mat_peptide 2630..3028
/gene="ORF1"
/product="VPg"
mat_peptide 3029..3571
/gene="ORF1"
/product="Pro"
mat_peptide 3572..5101
/gene="ORF1"
/product="RdRp"
gene 5085..6692
/gene="ORF2"
CDS 5085..6692
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="UYL33177.1"
/translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ
NNVIDPWIRLNFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKLVFAAVPPHFPLENISPGQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQQNEPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP
TVESKTKPFTLPVLTIGELTNSRFPVPIDELYTSPNESLVVQPQNGRCALDGELQGTT
QLLPTAICSFRGRINQKVSGENHVWNMQVTNINGTPFDPTEDVPAPLGTPDFSGKLFG
VLSQRDHDNACRSHDAVIATDSTKFTPKLGAVQIGTWEQDDVHINQPTKFTPVGLFEN
EGFNQWTLPNYSGALTLNMGLAPPVAPTFPGEQILFFRSHIPLKGGVADPVIDCLLPQ
EWIQHLYQESAPSQTDVALIRFTNPDTGRVLFEAKLHRSGYITVANTGSRPIVVPANG
YFRFDSWVNQFYSLAPMGTGNGRRRMQ"
gene 6692..7471
/gene="ORF3"
CDS 6692..7471
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UYL33178.1"
/translation="MAGAFIAGLAGDIVTNSIGSLVNAGANAINQKVDFENNKQLQQA
SFNHDKEMLQAQIQATKQLQADMIAIRQGVLTAGGFSPTDAARGAVNAPMTQVLDWNG
TRHWAPGATKTTAFSGGFTSASHARTVDLTKKTSATPAPMPVSRPSSIASTVSTRSTL
ISGSSNSPSSARSSSSVSSQPTSSSSRTSEWVRSQNRALEPYMNGALRTAYVTPPSSR
ASSNGTVSTVPKEVLDSWSSAFNTHRQPLFAHLRRRGESQA"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gcttgcaaca acaacaacga
61 caaggaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc
121 cctcggggct aggcccaaac agcctgcccc gagagacaaa ccacaaaggc ccccaagacc
181 accaactccc gagttggtca agaggatacc ctctcctcca cctaatggtg aagaagaaga
241 agaaccagtt attaggtatg aggttaagag tgggatctcc ggcctgcccg agctcacaac
301 agtcccccaa ccggacgtgg ccaacacagc attcagtgtt ccaccactga gcttgagaga
361 aaacagggaa gccaaggaac cgctaacagg ggcaatatta gagatgtggg atggagagat
421 ataccactac ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc
481 agccataagt atggctaaag tggagctgac gccgctgtca ttgtattggc gtgtggtgta
541 cactccccaa tacctcatct cccctgacac tctcaggagg ctcaacggag aggcattccc
601 ttacaccgcc tttgacaaca actgctatgc cttttgctgc tgggtattag acctcaacga
661 ttcatggctt agcaggagaa tggtacaaag aacaacgggc ttcttcagac cttaccaaga
721 gtggaacaga aagcccctac ctaccatgga tgactccaaa attaagaagg tagcaaatat
781 attcctatgt tcattgtcca cattgttcac tagacccata aaagacctca taggaaaaat
841 taaaccatta aacatattga atatcctggc gacgtgtgac tggacgtttg ccggaatagt
901 ggagtctcta atactatttg ctgaactctt cggagttttc tggacacccc cagatgtgtc
961 tgctataatc gctcccttac ttggggatta cgagttgcaa gggccagaag acctcgccgt
1021 tgaactcgta cctgtggtga tgggggggat tggtttggtg ttgggattca ccaaagagaa
1081 aattggcaaa atgttgtctt cggcagcatc aacactcagg gcttgcaaag atcttggtgc
1141 atatggcttg gagatactca aattggtcat gaagtggttc ttcccaaaga aagaggaggc
1201 taatgagcta gccatggtga gggccataga ggacgctgta ctagatcttg aggcaataga
1261 aaataaccac atgacagccc tgttgaaaga caaagacagc ttagcaacat acatgaaaac
1321 actggacatg gaggaggaga aagccagaag gttgtccaca aaatctgcat cccctgacat
1381 agttgggaca atcaacgccc tactggctcg aatagcagcg gccaggtcat tagtccacag
1441 ggccaaggaa gagctatcta gcaggatgag accagtagtt gttatgatat ctggcaaacc
1501 aggaataggc aaaactcatc tggccaggga ggtggcaaga aaggtggcat ccactctcac
1561 aggggatcaa agagtcggac tcataccaag aaacggtgtg gaccattggg atgcatataa
1621 aggtgagaga gtcgtgctgt gggacgacta tggcatgagt aaccccattc atgatgccct
1681 tcgcatacaa gaattggctg atacgtgtcc cctcacctta aattgtgaca gaattgaaaa
1741 taaaggaaaa gtttttgata gtgaagtcat aataatcaca acaaaccttg ccaacccagc
1801 cccgcttgat tatgtcaact ttgaggcctg ctccaggaga attgatttcc tggtgtacgc
1861 tgaggcacca gatgtggaaa aggcaaaacg ggactttcct ggtcagccag atatgtggaa
1921 ggacgccttc aaatcggact tttcacacat caagcttcag cttgcgcctc agggcggctt
1981 tgacaaaaac ggcaacaccc cacatgggaa aggggtgatg aagaccctca ctaccggttc
2041 tctgattgcc cgcgcatcag gcctactgca tgagaggatg gatgaatttg aactccaagg
2101 tcctacaatc accaccttca atttcgaccg gaacagaatc acagcattca gacaattggc
2161 tgcagaaaac aagtatggac tggtggacac catgaaagtc ggcaatcaat taaaaggagt
2221 gaaaaccatg gaagagctca aacaagcaat caggaatgtg accatcaaga ggtgccggat
2281 cgtctacggt ggctccacat atgaccttga atctgatggc aagggcaaag ttttggtgga
2341 aaaggttaag aacgcctctg tgcagaccaa caacgagttg gccggggccc tgcaccatct
2401 caaacacgcc cgaatcaggt actatgtcaa gtgtgtgcaa gaagcagtct actctatcat
2461 acaaattgcc ggcgctgcgt ttgtcaccac gcgcattgca cgccgcatga acatacaaga
2521 actctggtcg aagccacaat tggatcaaaa tgaatcagag actaaggaag aggcccccaa
2581 gccagaagat gacgagttca tcatatcttc taaggacatc aaggaggaag gaaagaaggg
2641 caaaaataaa actggccgtg gcaagaaaca cactgcattc tccagcaagg gcttgagcga
2701 tgaggagtac gacgagtaca agaggataag agaggagaga aatgggaagt actctataga
2761 ggaatatctt caagacagag acaggtacta tgaagaactc gccattgcca aggccacgga
2821 agaagacttc tgtgaagagg aggagataaa aatccgtcag agaattttcc gtcctaccag
2881 gaaacaaagg aaggaagaga gggccacatt agggctagta acaggttcag aaatcagaaa
2941 aagaaacccc gaagacttca aacctaaagg gaagctgtgg gccgatgaca acagaagtgt
3001 tgactacaat gagaaactgg attttgaggc ccccccaagc atatggtcta ggattgtgag
3061 ctttggttct ggctggggtt tctgggtgtc accaagcctg ttcataacat caactcatgt
3121 aatccccaca ggcataacag aagcatttgg agtccccatc aaacaagttc aaatccacaa
3181 atcgggtgaa ttttgccgat tcagattccc aaaaccaatt agaccagatg tgacaggaat
3241 gatcttggaa gaaggtgcgc ctgagggcac cgtggcaact gtgctcatca aacgccccac
3301 cggagagctc atgcctcttg cagccagaat gggaacacac gcaaccatga aaattcaagg
3361 ccgcatggtt ggcggacaga tgggcatgtt gctcactgga tcaaatgcta aaggaatgga
3421 tttggggaca actcctggag actgtggctg cccttacatc tataaaaggg gcaatgacta
3481 tatagtcatt ggggtgcaca ctgcagcagc ccgtggtgga aacaccgtca tctgtgccac
3541 acagggaagt gagggtgagg caactcttga gggtggagat gacaaaggaa catattgtgg
3601 ggcacccatt ctaggccctg ggggtgcacc aaaattgagc actaaaacca aattttggag
3661 gtcatcgaac acgccccttc caccagggac atatgagcct gcctacctcg gcggccgtga
3721 cccgcgtgtc aagggtgggc cctccttgca gcaggtaatg agagaccagt tgaagccatt
3781 cattgaaccc aggggcaaac ctccaagacc aagtgtattg gaagcagcca aacaaaccat
3841 catcaatgtc ctcgagcaaa ccctggaccc tccacaaaaa tggacatacg cacaggcgtg
3901 tgcctcactt gacaaaacca cctccagcgg tcatccctat cacgttcgaa agaatgaatt
3961 ctggaatggt gagaccttca ctggtaaatt ggcagaccaa gcatcaaaag caaacctaat
4021 gtttgaggaa gggaaacaca tgacaccagt gtatacagca gcactcaagg acgagctagt
4081 caagactgag aaaatctatg gaaagatcaa gaagagactg ctctggggct ctgatttgtc
4141 caccatgatc cggtgtgcta ggtcatttgg tgggctcatg gacgagatga aggcacactg
4201 catatcactc ccagtccgag ttggcatgaa catgaatgaa gatggcccaa taatatttga
4261 gaaacactcc agatacaact atcactatga tgcagactac tctcgttggg attcaacaca
4321 acagagggca gtactggcag cagccttgga agtcatggtc agattctctg cagaaccaca
4381 attggcacaa atagtcgctg aggacctact ggcccctagt gtagtagatg taggagattt
4441 taaaatcaca ataaatgagg ggctcccctc tggtgtgcca tgcacttctc aatggaactc
4501 catcgcacac tggttgctaa ctctctgtgc cttgtctgaa gtcactaagc tgtcacctga
4561 cattatacag gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagcaccga
4621 cataaaattg gaccccgaac agttgaccgc caaattgaag gagtacggcc taaaaccaac
4681 ccgcccagac aaaaccgagg gacccctgat catcagtgaa gatttgaacg gactcacttt
4741 cctccgaagg acggtgactc gtgacccagc tggctggttt ggaaaactgg accaaagctc
4801 aattctgaga cagatgtact ggactagagg accaaatcat gaagacccca atgagacaat
4861 gataccccat tctcagaggc ccatacagct catggcacta cttggtgaag cctctcttca
4921 cggaccctct ttctacagta aaatcagtaa attggtcata actgaactca aagaaggtgg
4981 gatggacttt tacgtgccaa ggcaggaacc catgttcagg tggatgaggt tttctgactt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga
5101 atgacgccgc tccatctaat gatggtgcag ccggtctcgt accagaggtc aacaatgaga
5161 ccatggcact tgaaccggtg gctggggctt cgatagccgc cccactcacc ggccaaaata
5221 atgttataga cccctggatt agattaaatt ttgtgcaggc ccctaatgga gagtttacag
5281 tctcaccccg caactcgcct ggggaagtcc tactcaattt ggaattaggt cccgaattga
5341 atccatattt ggcacacctt tctagaatgt ataatggtta tgcaggtgga gttgaggtac
5401 aagtgctact ggctgggaac gcgttcacgg ctggaaaatt ggtatttgct gcagttcccc
5461 ctcattttcc attagagaat ataagccctg gtcaaataac catgttccct catgtaatta
5521 ttgatgttag gactttggaa ccagttttat tgcctttacc agatgtcaga aataatttct
5581 tccattacaa tcagcaaaat gagccgagga tgaggcttgt tgcaatgctt tatacccctc
5641 ttagatctaa tggttctggt gatgatgtgt tcaccgtttc ctgtagggtg ctcactagac
5701 cctctcctga ttttgatttt aattatttgg tgcccccaac agttgaatct aaaacaaaac
5761 cattcacact ccctgtcttg accattgggg agttaaccaa ttccaggttc cccgtgccca
5821 tagatgaact ctacactagc cccaatgaga gtttggtggt tcaaccccag aatgggaggt
5881 gcgcgctgga tggggagttg cagggcacca cccagctcct ccccacggcg atttgctcat
5941 ttaggggtcg gatcaatcag aaagtgagtg gagagaatca tgtttggaac atgcaagtca
6001 ccaacattaa cggaacccct tttgatccaa cagaggatgt tccagcccct ctgggcacgc
6061 cagacttttc tggcaagctc tttggtgtcc taagccagag ggaccatgat aatgcctgca
6121 ggagtcatga tgctgtgatt gcaactgatt ctaccaaatt taccccaaaa ttgggtgctg
6181 tgcaaattgg cacatgggaa caagatgatg tacatatcaa ccaacccacc aagtttactc
6241 cagttggatt gtttgagaat gaaggtttta atcaatggac acttcctaat tattctggag
6301 ctttaacact caatatgggg ttggcccccc ctgtggcccc cacattccct ggtgagcaaa
6361 ttctcttctt caggtcccac attcccctta aaggaggtgt tgcagaccca gttattgatt
6421 gtcttctacc ccaagaatgg atccaacacc tttatcagga gtcagcccct tcacaaacag
6481 atgtggcact gattagattc acaaatccag acacagggcg tgtcctattt gaagcaaaat
6541 tgcacaggag tggctacatc acagtggcca acactggcag tagaccaatt gtggtgccag
6601 ctaatggtta tttcaggttt gactcttggg ttaatcagtt ttactctctt gcccccatgg
6661 gaactgggaa tgggcgcaga aggatgcagt aatggccgga gctttcatag cagggcttgc
6721 cggtgacata gtcaccaata gcattggctc actcgtgaac gctggggcca atgcaataaa
6781 ccagaaagta gactttgaaa acaacaagca actacaacag gcatctttca accatgacaa
6841 agagatgttg caagctcaaa ttcaggccac taaacagcta caggctgaca tgattgcaat
6901 cagacaaggg gtgttgaccg caggcggctt ctcccctact gatgcagcaa gaggtgcagt
6961 caatgcgccc atgacccaag tcttggattg gaatgggacc agacattggg cccccggagc
7021 cacgaaaaca actgctttct ccggtgggtt taccagtgcc tctcatgcca ggaccgttga
7081 cctgaccaag aagacatcag ccacaccagc ccctatgcct gtttctaggc ctagttctat
7141 tgcttctact gtttctactc gctctacttt gattagtggg tcttctaatt ctccttcttc
7201 agctaggagc tcttctagtg tttcttccca acccacttcc tcatcctccc gaactagtga
7261 gtgggtacgc agtcaaaata gggcgctgga gccttatatg aatggggcgc tgcgtacagc
7321 ctacgtgacg cctccatcca gtagggcttc tagcaatggc acagtctcaa ccgtgccaaa
7381 agaggttttg gactcctggt cgtctgcgtt taatacacac agacagccgc tgtttgctca
7441 tctccgtcgg agaggggagt cacaagctta gtgaaaagat agtcttttct ttctttcctt
7501 tgaaaatttc tgtcttttaa aaaaaaa
//