Typing tool
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Typing tool
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Complete norovirus genomes
| OP686903 | GII.10 | |
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| GII.P16 |
ORF1: 5..5104
ORF2: 5085..6731
ORF3: 6731..7504
LOCUS OP686903 7548 bp RNA linear VRL 25-OCT-2022
DEFINITION Norovirus GII isolate Hu/US/2020/GII.10[P16]/CA-RGDS-1152, complete
genome.
ACCESSION OP686903
VERSION OP686903.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7548)
AUTHORS Pan,C.-Y., Hatada,A., Morales,C., Meek,R.T., De Leon,J.G.,
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..7548
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="CA-RGDS-1152"
/isolate="Hu/US/2020/GII.10[P16]/CA-RGDS-1152"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA: WA"
/collection_date="Nov-2020"
/note="Amplicon sequencing:first 35 nt does represent
primer sequence;
genotype: GII.10[P16]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="UYL06243.1"
/translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDKPQKPPRPPTPELVKRTPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELAPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEVNELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTVTTFNFDRNRITAFRQLAAENKYGLMDTMRVGNQLKGVK
TMEELKQAIRNVTIKRCQIIYGGSTYDLESDGRGKVLVEKVKNTSVQTNNELAGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE
APKSEEDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGMTEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVASVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGIYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPNVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGYPHHVRKNEFW
SGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTTKLK
EYGQKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQIYWTRGP
NHEDPNETMIPHTQRPIQLMALLGEAALHGPSFYSKISKLVITELKEGGMDFYVPRQE
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..6731
/gene="ORF2"
CDS 5085..6731
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="UYL06244.1"
/translation="MKMASNDAAPSSDGAAGLVPESNTEVMALEPVAGASLAAPVTGQ
TNIIDPWIRMNFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPYLAHLSRMYNGYAGG
MEVQIMLAGNAFTAGKLIFAAVPPHFPVENLSPPQITMFPHVIIDVRTLEPVLLPMPD
IRNSFFHFIQRDEPKMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFDFTYLVPP
TVESKSKPFTLPILTLGELTNSRFPLPIDMLYTNPNESAVVQCQNGRCTLDGELQGTT
QLLPTGICAFRGKVTQQVQDDHRGTHWNMTVTNLNGTPFDPTEDIPAPLGTPDFSGQI
YGVISQRNTNTVPAEGNLPANRAHEAVIATYSPKFTPKLGNIQFSTWETQDVSTGQPT
KFTPVGLASVDANSHFDQWTLPSYSGALTLNMNLAPSVAPVFPGECLLFFRSFIPLKG
GYGNPAIDCLLPQEWVQHLYQESAPSLSDVALVRYVNPETGRTLFEAKLHRNGFLTVA
RNSTGPVVAPTNGYFRFDSWVNQFYTLAPMGNGSGRRRMQ"
gene 6731..7504
/gene="ORF3"
CDS 6731..7504
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UYL06245.1"
/translation="MAGAFVAGLAGDVLSNGIGSLINAGANAINQRAEFDFNRQLQQN
SFNHDKEMLQAQVQATKQLQADMIAIKQGVLAAGGFSPTDAARGAVNAPMTQALDWSG
TRYWAPGAMKTSSYSGRFISTTPSRQVEFPQRKNAAPSTGSSYGGSSRSTVSTTLGSS
VSSSSRASPLTQSSLVSNSSSSRSRTSDWVREQNRSLEPFMHGALQTTFVTPPSSKAS
SNGTVSTVPKGVLDSWTPAFNTRRQPLFAYLRPKGESQV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gcttgcaaca acaacaacga
61 caaagaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc
121 cctcggggct aggcccaaac agcctgcccc gagagacaaa ccacaaaagc ccccaagacc
181 accaactccc gagttggtca agaggacacc ccctcctcca cctaatggcg aagaagaaga
241 agaaccagtc attagatatg aggttaagag tgggatttct ggcctgcccg agctcacaac
301 agtcccccaa ccggacgtgg ccaacacagc attcagtgtc ccaccactga gcttgagaga
361 aaacagggag gccaaggaac cgctaacagg ggcaatatta gagatgtggg atggagagat
421 ataccactat ggcctgtacg tggagaaagg cttagtattg ggtgtgcaca aaccacctgc
481 agccataagt atggcaagag tggagctggc gccgctgtca ttgtactggc gtgtggtgta
541 cactccccaa tacctcatct cccctgaaac tctcaggagg ctcaatggag aggcattccc
601 ttataccgcc tttgacaaca actgctatgc cttttgctgt tgggtgttag acctcaatga
661 ctcatggctt agcaggagga tggtgcaaag aacaacgggc ttcttcagac cttaccaaga
721 gtggaacagg aaacccctgc ccacaatgga tgactccaaa attaagaagg tagcaaatat
781 attcctatgt tcactgtcca cattattcac cagacctata aaagatctca taggaaaaat
841 taaaccatta aacatattga acatcctggc aacgtgtgac tggacttttg ccggaatagt
901 ggagtctctg atattacttg ctgaactctt cggagttttc tggacacccc cagatgtgtc
961 tgctatgatc gctcctctac tcggggacta cgagttgcaa gggccagaag acctcgccgt
1021 tgaactcgta cctgtggtaa tgggggggat tggtttggtg ttgggattca ctaaagagaa
1081 aattggcaag atgttgtcct cagcagcatc aacactcagg gcttgcaaag atcttggtgc
1141 ctatggctta gagatactca aattggtcat gaagtggttc ttcccaaaga aagaggaggt
1201 caatgagtta gccatggtga gggccataga ggatgctgta ctagatcttg aggcaataga
1261 aaataaccac atgacaacct tgttgaaaga caaagacagc ttagcaacat acatgaaaac
1321 actggacatg gaggaggaga aagccaggag gttgtccaca aaatctgcat cccctgacat
1381 agttgggaca atcaacgccc tgctggctcg aatagcagcg gccaggtcat tagttcacag
1441 ggccaaggaa gagctatcta gcaggataag accagtagtt gttatgatat ctggcaaacc
1501 aggaataggc aaaactcatc tggccaggga ggtggcaaga aaggtggcat ccactctcac
1561 aggggatcag agagtcggac tcataccacg aaacggtgtg gaccattggg atgcatacaa
1621 aggtgagaga gtcgtgctgt gggacgacta tggcatgagt aacccaattc atgatgctct
1681 tcgcatacaa gaattggctg atacgtgtcc cctcacctta aattgtgaca gaattgaaaa
1741 caagggaaaa gtttttgaca gtgaagtcat aataattaca acaaaccttg ccaacccagc
1801 cccacttgat tatgttaact ttgaagcctg ttccaggaga attgatttcc tggtgtacgc
1861 tgaggcacca gaagtagaaa aggcgaaacg ggactttcct ggtcagccag atatgtggaa
1921 ggacgccttc aagccggact tttcacacat caagctacag cttgcacccc agggcggctt
1981 tgacaaaaat ggcaacaccc cacatgggaa aggagtgatg aagaccctca ctaccggttc
2041 tctgattgcc cgtgcatcag gcctactgca tgagaggatg gatgaatttg agctccaagg
2101 tcccacggtc accaccttca atttcgaccg gaacagaatc acagcattca gacaattggc
2161 tgcagaaaac aagtatgggt tgatggacac catgagagtt ggcaaccaat taaaaggagt
2221 gaaaaccatg gaagaactca aacaagcaat caggaatgtg accatcaaga ggtgtcagat
2281 catctacggt ggttccacgt atgatcttga atctgatggc aggggcaaag ttttggtgga
2341 aaaggtcaag aacacctctg tacagaccaa caacgagttg gctggggccc tgcaccatct
2401 caaacacgcc cgaatcaggt actatgtcaa atgtgtacaa gaagcagtct actccatcat
2461 acaaattgcc ggcgctgcgt tcgtcaccac gcgcattgca cgccgcatga atatacaaga
2521 actctggtcg aagccacaat tagatcaaaa tgaatcagag actaaggaag aggcccccaa
2581 gtcagaagaa gacgagttca tcatatcttc taaggacatc aaggaggaag gaaagaaggg
2641 caaaaacaaa actggccgtg gcaagaagca cactgcattc tccagcaagg gcttgagcga
2701 tgaggagtat gacgagtaca agagaataag agaagagagg aatgggaagt actctataga
2761 ggagtatctt caagacagag acaggtacta tgaggaactc gccattgcca aggccacgga
2821 agaagatttc tgtgaagagg aggagatcaa aatccgtcag agaattttcc gtcccaccag
2881 gaaacaaaga aaggaagaaa gggccacatt agggctagta acaggttcag aaatcagaaa
2941 aagaaaccct gatgacttca aacccaaagg gaagctgtgg gccgatgaca acaggagtgt
3001 tgactacaat gagaaactgg actttgaggc ccccccaagc atatggtcta ggattgtgag
3061 ctttggttct ggctggggct tctgggtgtc accaagcctt ttcataacat caactcatgt
3121 gatccccgca ggcatgacag aagcatttgg agtctccatc aaacaaatac agatccacaa
3181 atcaggtgag ttttgccgat tcagattccc aaaaccaatt agaccagatg tgacaggaat
3241 gatcttggag gaaggtgcgc ctgagggcac cgtggcatct gtgctcatca aacgccccac
3301 cggagagctc atgcctcttg cagccagaat gggaacacac gcaaccatga aaattcaagg
3361 ccgcatggta ggcggacaga tgggtatgtt gctcactgga tcaaatgcta aaggaatgga
3421 tttgggaaca actcctggtg actgtggctg tccttacatc tataagaggg gcaatgacta
3481 tatagtcatt ggggtgcaca ctgcagcagc ccgtggtgga aacaccgtca tctgtgccac
3541 acagggaagt gaaggtgagg caactcttga gggtggagat gacaaaggaa catactgtgg
3601 ggcacccatt ctaggccctg gaggtgcacc aaaattgagc accaaaacca aattttggag
3661 gtcatcaaac acgcccctcc caccagggat atatgagcct gcctacctcg gtggccgtga
3721 tccgcgtgtt aagggtgggc cttccctgca acaggtaatg agagaccagt tgaagccatt
3781 cactgagccc aggggcaagc ctccaagacc aaatgtattg gaagcagcca aacaaaccat
3841 catcaatgtc ctcgaacaaa ccctggaccc cccacaaaaa tggacatacg cacaagcgtg
3901 tgcctcactt gacaaaacca cctccagcgg gtatccccat cacgtccgaa agaatgaatt
3961 ctggagtggt gagaccttca ctggtaaact ggcagaccaa gcatcaaaag caaacctaat
4021 gttcgaggaa gggaaacaca tgacaccagt gtacacagca gcactcaagg acgagctagt
4081 caagactgag aaaatctatg gaaagatcaa gaagagactg ctctggggct ctgacttgtc
4141 caccatgatc cggtgcgcta ggtcgtttgg tggacttatg gacgagatga aggcacactg
4201 catatcactc ccagtccgag ttggcatgaa tatgaatgaa gatggtccaa taatatttga
4261 gaaacattcc aggtacaaat atcactatga tgcagactac tctcgttggg attcaacaca
4321 acagagggca gtactagcag cagccttgga aatcatggtc agattctctg cagaaccaca
4381 attggcacaa atagtcgctg aggatctgct ggcccctagt gtagtagatg taggagactt
4441 taaaattaca ataaatgaag ggctcccttc tggtgtgcca tgcacttctc aatggaactc
4501 catcgcacac tggctgctaa ctctttgtgc cttgtctgaa gtcaccaaac tgtcccctga
4561 catcatacag gcaaactcca tgttctcatt ttacggtgat gacgagattg tcagcactga
4621 cataaaattg gaccctgaac agttaaccac caaattgaag gagtacggcc aaaaaccaac
4681 ccgcccagac aaaaccgagg gacccctgat tatcagtgaa gatttgaacg gtctcacttt
4741 cctccgaagg acggtgactc gtgacccagc tggatggttt ggaaagctgg accagagctc
4801 aattttgagg cagatatact ggactagagg accaaatcat gaagacccca atgagacaat
4861 gataccccat actcaaagac ccatacagct catggcactg cttggtgaag ccgctcttca
4921 cggaccctct ttctacagca aaatcagtaa attggtcata actgaactca aagaaggtgg
4981 gatggacttt tacgtgccaa ggcaagaacc catgtttagg tggatgaggt tttctgactt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga
5101 atgacgccgc tccatctagt gatggtgcag ccggcctcgt gccagaaagt aatactgagg
5161 ttatggctct tgaacctgta gctggggcat ctttagctgc ccctgtgacg ggtcaaacaa
5221 atataattga cccatggata agaatgaact ttgttcaagc cccaaatgga gagtttactg
5281 tttccccaag aaattcccct ggagaagtac tcctaaattt ggaactgggt cctgaattaa
5341 atccttatct ggcacattta tccaggatgt acaatggcta tgctggaggc atggaagttc
5401 agattatgct agctgggaac gcgttcactg ctggcaaact gatctttgct gctgtgcctc
5461 cacattttcc cgttgaaaat ctgagccctc cccaaattac aatgttccca catgtgatta
5521 tagatgttag aaccttagaa cctgtgttac tccctatgcc cgacatcagg aattccttct
5581 ttcatttcat ccagagggat gagccaaaaa tgagattggt ggcaatgtta tacacaccac
5641 tgaggtctaa tggttctgga gatgatgtat tcacagtttc atgtagggtt ctgacccgtc
5701 ccacccctga ttttgatttt acttacttgg tgccaccaac tgttgaatca aagagtaaac
5761 cctttacttt gcctatatta acattgggag aattgacaaa ttctagattt cccttgccca
5821 ttgacatgtt gtacaccaat ccaaatgaaa gtgcagttgt tcagtgtcaa aatggtaggt
5881 gcaccctgga cggtgagctg cagggaacaa cccaactcct gcccacaggc atctgcgcat
5941 ttaggggcaa ggtcactcaa caggtgcagg atgatcacag gggtacacac tggaacatga
6001 cagtgaccaa cttgaatggg actccgtttg atccaactga ggacatccct gccccactag
6061 gtactccgga cttttccggt caaatttatg gggtaataag tcagagaaac accaacacag
6121 ttcccgcaga aggaaatctt ccggccaacc gggctcatga agctgtgatt gcaacctaca
6181 gtcccaaatt cacacccaaa ttgggcaaca ttcaatttag tacttgggaa acccaagatg
6241 tgagtactgg acaacccacc aagttcaccc cagttggctt ggcctctgtg gatgctaact
6301 cccattttga tcaatggact ctccccagct actctggtgc tttaacttta aatatgaatt
6361 tggccccatc tgtcgcccca gtctttcctg gagagtgtct tctgttcttt aggtctttca
6421 tcccactgaa ggggggctat gggaaccccg ccattgattg cctgttgcca caagagtggg
6481 tccagcacct ctatcaggag tcagcaccat ctcttagcga tgtggctttg gtgaggtatg
6541 tgaacccaga gactggacgc accctctttg aagccaagtt gcacaggaat ggattcctga
6601 ctgttgctag gaacagcact ggacctgtcg tggcccccac aaatgggtat tttagatttg
6661 attcctgggt caaccagttt tacactttag cccccatggg aaatggcagt gggcgtagaa
6721 gaatgcagta atggctggag cttttgtagc aggtttggcc ggtgacgttc ttagtaacgg
6781 aatcgggtca cttattaatg ctggtgccaa tgcaattaac caaagagctg aatttgattt
6841 taataggcag ttacaacaaa attcttttaa tcatgacaaa gagatgctcc aggcccaagt
6901 ccaagcaaca aagcagctgc aagcagacat gatcgccatc aagcaagggg tgttggccgc
6961 tggcggcttc tcccccactg atgcagcaag aggggcagtt aacgctccta tgacacaggc
7021 tttggactgg agtggcacga gatattgggc tccaggtgcc atgaaaacat ccagctattc
7081 aggcaggttt atatcgacca ctccatctag gcaagttgag tttcctcagc gtaagaatgc
7141 tgccccctcc actggctctt cttatggtgg gtcttctaga tctacagtct ctactactct
7201 tggttcttct gtatcttcta gttctagagc ttcaccccta actcaatcta gtttggtttc
7261 taattcttct tcatcaagat caagaactag tgactgggtg cgtgagcaaa accggagcct
7321 agaacccttt atgcatgggg ctttgcagac tacctttgtc actcctccat caagcaaagc
7381 ttctagcaat gggacggtct cgaccgttcc aaaaggtgtt ttggactctt ggacacctgc
7441 gtttaacacc cgcaggcagc cgcttttcgc ataccttcga ccgaagggag agtcacaagt
7501 ttagtgaaaa gattaatttt ctttttaaat ttctctttta aaaaaaaa
//