Typing tool
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Typing tool
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Complete norovirus genomes
| OP691294 | GII.10 | |
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| GII.P16 |
ORF1: 5..5104
ORF2: 5085..6731
ORF3: 6731..7504
LOCUS OP691294 7538 bp RNA linear VRL 25-OCT-2022
DEFINITION Norovirus GII isolate Hu/US/2022/GII.10[P16]/CA-RGDS-1159
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION OP691294
VERSION OP691294.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7538)
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..7538
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="CA-RGDS-1159"
/isolate="Hu/US/2022/GII.10[P16]/CA-RGDS-1159"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA: CA"
/collection_date="May-2022"
/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="UYL41071.1"
/translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDKPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLGLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTVTTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE
APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPAGMTEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVASVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPNVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKVKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
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..6731
/gene="ORF2"
CDS 5085..6731
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="UYL41072.1"
/translation="MKMASNDAAPSSDGAAGLVPESNTEVMALEPVAGASLAAPVTGQ
TNIIDPWIRMNFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPYLAHLSRMYNGYAGG
MEVQIMLAGNAFTAGKLIFAAVPPHFPVENLSPPQITMFPHVIIDVRTLEPVLLPMPD
IRNSFFHFIQRDEPKMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFDFTYLVPP
TVESKSKPFTLPILTLGELTNSRFPLPIDMLYTNPNESAVVQCQNGRCTLDGELQGTT
QLLPTGICAFRGKVTQQVQDDHRGTHWNMTVTSLNGTPFDPTEDIPAPLGTPDFSGQI
YGVISQRNTNTVPAEGNLPANRAHEAVIATYSPKFTPKLGNIQFSTWETRDVDTGQPT
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="UYL41073.1"
/translation="MAGAFVAGLAGDVLSNGIGSLINAGANAINQRAEFDFNRQLQQN
SFNHDKEMLQAQVQATKQLQADMIAIKQGVLAAGGFSPTDAARGAVNAPMTQALDWSG
TRYWAPGAMKTSSYSGRFISTTPSRQVEFPQRKNAAPPTGSSYGGSSRSTVSTTLGSS
VSSSSRASPLTQSSLISNSSLSRSRTSDWVREQNRSLEPFMHGALQTTFVTPPSSKAS
SNGTVSTVPKGVLDSWTPAFNTRRQPLFAYLRPKGESQV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gcttgcaaca acaacaacga
61 caaagaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct tgaagaaagc
121 cctcggggct aggcccaaac agcctgcccc gagagacaaa ccacaaaagc ccccaagacc
181 gccaactccc gagttggtca agaggatacc ccctcctcca cctaatggcg aagaagaaga
241 agaaccagtc attagatatg aggttaagag tgggatttct ggcctgcccg agctcacaac
301 agtcccccaa ccggacgtgg ccaacacagc attcagtgtc ccaccactgg gcttgagaga
361 aaacagggag gccaaggaac cgctaacagg ggcaatacta gagatgtggg atggagagat
421 ataccactat ggcttgtacg tggagaaagg cttagtatta ggtgtgcaca aaccacctgc
481 agccataagt atggcaagag tggagctgac gccgctgtca ttgtactggc gtgtggtgta
541 cactccccaa tacctcatct cccctgaaac cctcaggagg ctcaatggag aggcattccc
601 ttataccgcc tttgacaaca actgctatgc cttttgctgt tgggtgttag acctcaatga
661 ctcatggctt agcaggagga tggtgcaaag aacaacgggc ttcttcagac cttaccaaga
721 gtggaacaga aaacccctgc ccacaatgga tgactccaaa attaagaagg tagcgaatat
781 attcctatgt tcgctgtcca cattattcac cagacctata aaagatctca taggaaaaat
841 taaaccatta aacatattga acatcctggc aacgtgtgac tggacttttg ccggaatagt
901 ggagtctctg atattacttg ctgaactctt cggagttttc tggacacccc cagatgtgtc
961 tgctatgatc gcccccctac tcggggacta cgagttgcaa gggccagaag atctcgccgt
1021 tgaactcgta cctgtggtaa tgggggggat tggtttggtg ttgggattca ctaaagagaa
1081 aattggcaaa atgttgtcct cagcagcatc aacactcagg gcctgcaaag atcttggtgc
1141 ctatggctta gagatactca aattggtcat gaagtggttc ttcccaaaga aagaggaggc
1201 caatgagtta gccatggtga gggccataga ggatgctgta ctagaccttg aggcaataga
1261 aaataaccac atgacaacct tgttgaaaga caaagacagc ttagcaacat acatgaaaac
1321 actggacatg gaggaggaga aagccaggag gttgtccaca aagtctgcat cccctgacat
1381 agttgggaca atcaacgccc tgctggctcg aatagcagcg gccaggtcat tagttcacag
1441 ggccaaggaa gagctatcta gcaggataag accagtagtt gttatgatat ctggcaaacc
1501 aggaataggc aaaactcatc tggccaggga ggtggcaaga aaggtggcat ccactctcac
1561 aggggatcaa agagtcggac tcataccaag aaacggtgtg gaccattggg atgcatacaa
1621 aggtgagaga gtcgtgctgt gggacgacta tggtatgagt aacccaattc atgatgctct
1681 gcgcatacaa gaattggctg atacgtgtcc cctcacctta aattgtgaca gaattgaaaa
1741 taagggaaaa gtttttgaca gtgaagtcat aataattaca acaaaccttg ccaacccagc
1801 cccacttgac tatgtcaact ttgaagcctg ttccaggaga attgatttcc tggtgtacgc
1861 tgaggcacca gaagtggaaa aggcaaaacg ggactttcct ggtcaaccag atatgtggaa
1921 ggacgccttc aagccggact tttcacacat caagctacag cttgcacccc agggcggctt
1981 tgacaaaaat ggcaacaccc cgcatgggaa aggagtgatg aagactctca ctactggttc
2041 tctgattgcc cgtgcatcag gcctactgca tgagaggatg gatgaattcg aactccaagg
2101 tcccacggtc accaccttca atttcgaccg gaacagaatt acagcattca gacaactggc
2161 tgcagaaaac aagtatggat tggtggacac catgaaagtt ggcaaccaat taaaaggagt
2221 gaaaaccatg gaagaactca aacaagcaat taggaatgtg accatcaaga ggtgccagat
2281 catctacggt ggttccacgt atgaccttga atctgatggc aagggtaaag ttttggtgga
2341 aaaggtcaag aacacctctg tacagaccaa caacgagttg gctggggccc ttcaccatct
2401 taaacatgct cgaatcaggt actatgtcaa atgcgtacaa gaagcagtct attccatcat
2461 acaaattgcc ggcgctgcgt tcgtcaccac tcgcattgcg cgccgtatga atatacaaga
2521 actctggtcg aagccacaat tagatcaaaa tgaatcagag actaaggaag aggcccccaa
2581 atcagaagac gacgagttca tcatatcttc aaaggacatc aaggaggaag gaaagaaggg
2641 caaaaacaaa actggccgtg gcaagaaaca cactgcattc tccagcaagg gcttgagcga
2701 tgaggagtat gacgagtaca agagaataag agaagagaga aatggaaagt actctataga
2761 ggagtatctt caagacagag acaggtacta tgaggaactc gccattgcca aggccacgga
2821 agaagacttc tgtgaagagg aggagattaa aatccgtcag aggattttcc gtcccaccag
2881 gaaacaaaga aaggaagaaa gggccacatt agggctagta acaggttcag aaatcagaaa
2941 aagaaaccct gatgacttca aacccaaagg gaagctgtgg gccgatgaca ataggagtgt
3001 tgattacaat gagaaactag actttgaggc ccccccaagc atatggtcta ggattgtgaa
3061 ctttggttct ggctggggct tctgggtgtc accaagcctt ttcataacat caactcatgt
3121 gatccccgca ggcatgacag aagcatttgg agtccccatc aaacaaatac agatccacaa
3181 atcaggtgag ttttgccgat tcagattccc aaaaccaatt agaccagatg tgacaggaat
3241 gatcttggag gaaggtgcgc ctgagggcac cgtggcatct gtgctcatca aacgccccac
3301 cggagaactc atgcctcttg cagccagaat gggaacacac gcgaccatga aaattcaagg
3361 ccgcatggta ggcggacaaa tgggtatgtt gctcactggg tcaaatgcta aaggaatgga
3421 tttgggaaca actcctggtg actgtggctg tccttacatc tataaaaggg gcaatgacta
3481 tatagtcatt ggggtacaca ctgcagcagc ccgtggtgga aacaccgtca tctgtgccac
3541 acagggaagt gaaggtgagg caacccttga gggtggagat gacaaaggaa catactgtgg
3601 ggcacccatt ctaggccctg gaggtgcacc aaagttgagt accaaaacca aattttggag
3661 gtcatcaaac acgccccttc caccagggac atatgagcct gcctacctcg gtggccgtga
3721 tccgcgtgtt aagggtgggc cttccctgca acaggtaatg agagaccagt tgaagccatt
3781 cactgagccc aggggcaagc ctccaagacc aaatgtgttg gaagcagcca aacaaaccat
3841 catcaatgtc ctcgaacaaa ccctggaccc cccacaaaag tggacatacg cacaagcgtg
3901 tgcctcactt gacaaaacca cctccagcgg gcacccccac cacgtccgaa agaatgaatt
3961 ctggaatggt gagaccttca ctggtaaact ggcagaccaa gcatcaaaag caaacctaat
4021 gttcgaggaa gggaaacaca tgacaccagt gtacacagca gcactcaagg acgagctagt
4081 caagactgag aaaatctatg gaaaggtcaa aaagagactg ctctggggtt ctgacttgtc
4141 caccatgatc cggtgcgcta ggtcgtttgg tggactcatg gacgagatga aggcacactg
4201 catatcactc ccagtccgag ttggcatgaa tatgaatgaa gacggcccaa taatatttga
4261 gaaacattct agatacaaat atcactatga tgcagactac tctcgttggg attcaacaca
4321 acagagggca gtgctagcag cagccttgga aatcatggtc aggttctctg cagaaccaca
4381 attggcacaa atagtcgctg aggatctgct ggcccccagt 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 agttaaccgc caaattgaag gagtacggcc tgaaaccaac
4681 ccgcccagac aaaaccgagg gacccctgat tatcagtgag gacttgaacg gtctcacttt
4741 cctccgaagg acggtgactc gtgacccagc tggctggttt ggaaagttgg accagagctc
4801 aattttgagg cagatgtact ggactagagg accaaatcat gaagacccca atgagacaat
4861 gataccccat tctcaaagac ccatacagct catggcactg cttggtgaag cctctcttca
4921 cggaccctct ttctacagca aaatcagtaa attggtcata actgaactca aagaaggtgg
4981 gatggacttt tacgtgccaa ggcaagaacc catgttcagg tggatgaggt tttctgactt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga
5101 atgacgccgc tccatctagt gatggtgcag ccggcctcgt gccagaaagt aatactgagg
5161 ttatggctct tgaacctgta gctggggcgt ctttagctgc ccctgtgaca ggtcaaacaa
5221 atataattga cccatggata agaatgaact ttgttcaagc cccaaatgga gagtttactg
5281 tttccccaag aaattcccct ggagaagtac tcctaaattt ggaattgggt cctgaattaa
5341 acccttatct ggcacattta tctaggatgt ataatggcta tgctggaggc atggaagttc
5401 agattatgct agctgggaac gcgttcactg ctggcaaact gatctttgct gctgtgcctc
5461 cacattttcc cgttgaaaat ctgagccctc cccaaattac aatgttccca catgtgatta
5521 tagatgttag aaccttagaa cctgtgttac tccctatgcc tgacatcagg aactccttct
5581 ttcacttcat ccagagggat gagccaaaaa tgagattggt ggcaatgtta tacacaccat
5641 tgaggtccaa tggttctgga gatgatgtat tcacagtttc atgtagggtt ctgacccgtc
5701 ctacccctga ttttgatttt acttacttgg taccaccaac tgttgaatca aagagtaaac
5761 cctttacttt gcccatatta acattgggag aattgacaaa ttctaggttt cccttgccca
5821 ttgatatgtt gtacaccaat ccaaatgaaa gtgcagttgt tcagtgccaa aatggtaggt
5881 gcaccctgga cggtgagctg cagggaacaa cccaactcct gcccacaggc atttgcgcat
5941 ttaggggcaa ggtcactcaa caggtgcagg atgatcacag gggcacacac tggaacatga
6001 cagtgaccag cttgaatggg actccatttg acccaactga ggacatccct gccccactag
6061 gcactccgga cttctccggt caaatttatg gggtaataag tcagagaaat accaacacag
6121 ttcccgcaga aggaaacctt ccggccaacc gggctcatga agctgtgatt gcaacctaca
6181 gccccaaatt cacacccaaa ttgggcaaca ttcaattcag tacttgggaa acccgagatg
6241 tggacactgg acaacctacc aaattcaccc cagttggctt ggcctctgtg gatgctaact
6301 cccattttga tcaatggact ctccccagct actctggtgc tttaacttta aatatgaatt
6361 tggccccatc tgttgcccca gtctttcctg gagagtgcct tctgttcttt aggtctttca
6421 tcccactgaa ggggggctat gggaaccccg ctattgattg cctgctgcca caggagtggg
6481 tccagcacct ctatcaggag tcagcaccgt ctcttagcga tgtggctttg gtgaggtacg
6541 tgaacccaga gactggacgc accctctttg aagccaagtt gcataggaat ggattcctga
6601 ctgttgctag gaacagcact ggacctgtcg tggcccccac aaatggatat tttagatttg
6661 attcctgggt caaccagttt tacactttag cccccatggg aaatggcagt gggcgtagga
6721 gaatgcagta atggctggag cttttgtagc aggtttggcc ggtgacgttc ttagtaacgg
6781 aatcgggtca cttatcaatg ctggtgccaa tgcaatcaat caaagagctg aattcgattt
6841 taataggcag ttacaacaaa attcttttaa tcatgacaaa gagatgctcc aggcccaagt
6901 ccaagcaaca aagcagctgc aagcagacat gatcgccatc aagcaggggg tgttggccgc
6961 tggcggcttc tcccccactg atgcagcaag aggggcagtt aacgctccta tgacacaggc
7021 tttggactgg agtggcacga gatattgggc tccaggtgcc atgaaaacat ccagctattc
7081 aggcaggttt atatcgacca ctccatctag gcaagttgag tttcctcaac gcaagaatgc
7141 tgcccccccc actggctctt cttatggtgg gtcttctaga tctacagtct ctactactct
7201 tggttcttct gtatcttcta gttctagagc ttcaccccta actcaatcta gtttgatttc
7261 taactcttct ttatcaagat caagaactag tgactgggtg cgtgagcaaa accggagcct
7321 agaacccttt atgcatgggg ctttgcagac cacttttgtc actccaccat caagcaaagc
7381 ttctagcaat gggacggtct cgaccgttcc aaaaggtgtt ttggactctt ggacacctgc
7441 gtttaacacc cgcaggcagc cgcttttcgc ataccttcga ccgaagggag agtcacaagt
7501 ttagtgaaaa gattaatttt cttttaaatt tctctttt
//