Typing tool
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Typing tool
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Complete norovirus genomes
| OR687156 | GII.17 | |
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| GII.P31 |
ORF1: 1..5094
ORF2: 5075..6697
ORF3: 6697..7476
LOCUS OR687156 7476 bp RNA linear VRL 23-OCT-2023
DEFINITION Norovirus GII isolate Hu/US/2022/GII.17[P31]/CA-RGDS-1181
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION OR687156
VERSION OR687156.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7476)
AUTHORS Pan,C.-Y., Hatada,A., Padilla,T., Wright,C. and Morales,C.
TITLE Direct Submission
JOURNAL Submitted (17-OCT-2023) 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 Prime v. 2022.0.2; SPAdes v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7476
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/US/2022/GII.17[P31]/CA-RGDS-1181"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA: CA"
/collection_date="Oct-2022"
/note="genotype: GII.17[P31]"
gene <1..5094
/gene="ORF1"
CDS <1..5094
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WOD45360.1"
/translation="MASNDASAAAAANSNNDTVKSSSDGVLSSMAVTFKRALGARPKQ
PPPKEIPPRPPRPPTPELVKKIPPPPPNGEDEPVVSYSAKDGVSGLPELTTVRQPDEV
NTAFSVPPLNQRENRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLA
KVELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMIQRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLK
PLNILNILATCDWTFAGVVESMILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVIKWFFPKK
EEENELAMVRSIEDAVLDLEAIENNHLTTLLKDKDSLATYMRTLDLEEEKARKLSTKS
ASPDIVGTINALLARIAAARSLVHRAKEELSSRLRPVVVMISGKPGIGKTHLARELAK
KIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL
TLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVERAK
RDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMPD
LKQALKNVAIRKCQIVYGGSTYTLEADGKGSVKIDKVQSAAVQTNNEIAGALHHLRCA
RIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEETASKDGCPK
PKEDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLVTG
SEIRKRNPDDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSL
FITSTHVIPQGAKEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTV
ATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG
CPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPG
SAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVRGGPSLQQVMRDQLKPFTEPRG
KPPRPNVLEAAKKTIINVLEQTIDPPQKWSFSQACASLDKTTSSGHPHHMRKNDCWNG
ESFTGRLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLAT
MIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDST
QQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQ
WNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEY
GLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNH
EDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPM
FRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..984
/gene="ORF1"
/product="p48"
mat_peptide 985..2082
/gene="ORF1"
/product="NTPase"
mat_peptide 2083..2619
/gene="ORF1"
/product="p22"
mat_peptide 2620..3018
/gene="ORF1"
/product="VPg"
mat_peptide 3019..3561
/gene="ORF1"
/product="Pro"
mat_peptide 3562..5091
/gene="ORF1"
/product="RdRp"
gene 5075..6697
/gene="ORF2"
CDS 5075..6697
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WOD45361.1"
/translation="MKMASNDAAPSNDGATGLVPEINNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYNNQPANRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTISELTNSRFPVPVDSLFTAQNNNLNVQCQNGRCTLDGELQGTT
QLQPSGICAFRGKITADVRPNHDDRWHMQLTNLNGTPFDPTEDVPAPLGTPDFTGLLF
GVASQRNVQPNPNTTRAHEAVISTTSSQFVPKLGSINFGSTSEDFIVGQPTKFTPVGI
KIEDGHAFDQWTLPRYSGHLTLNMNLAPPVAPNFPGEQLLFFRSNVPCAGGISDGVID
CLLPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRTGYITVAHSGDYPLV
VPSNGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6697..7476
/gene="ORF3"
CDS 6697..7476
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WOD45362.1"
/translation="MAGAFIAGLAGDMLTNTVGSLANAGANAITQKIDFENNKQLQSA
SFQHDKDMLQAQVAATKQLQADMIAIKQGILTAGGFSPTDAARGAVGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSAPVHIPTKMIQPTPVKRTQPLSSSSGSVYSLSTQSTAL
TKPSSGSSSVSSASTQSTKLSSVSSMDRTANWVNQQRNLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTPAFNTRRQPLFAHLRVRGESRV"
ORIGIN
1 atggcgtcta acgacgcttc cgctgccgct gctgccaaca gcaacaacga caccgtaaaa
61 tcttcaagtg acggtgtgct ctctagcatg gctgtcactt ttaaacgggc cctcggggcg
121 cggcctaaac agccgccccc gaaggaaata ccacctagac ccccacggcc acccacacca
181 gagttggtca aaaagatccc tcctccccca cccaacggag aggatgaacc agtggtttcc
241 tatagcgcca aagatggtgt ttccgggctg cctgagctca ccactgtcag acaaccggat
301 gaagttaaca cggcgttcag tgttcccccg ctcaaccaaa gggagaacag ggacgccaag
361 gaaccattaa ctggaacaat tattgagatg tgggacggag aaatctacca ttacggcctg
421 tacgtggaac gaggtcttat acttggtgtg cataagccac cggcggccat cagccttgcc
481 aaagtcgagc taacaccact ctctctgttc tggagacctg tatacacacc ccagtacctc
541 atctctccag acactctcag gagactacat ggggagtcat tcccctacac tgcatttgat
601 aacaattgct atgccttctg ttgttgggta ttagacctaa acgactcatg gctaagcagg
661 agaatgattc agagaacaac aggtttcttc agaccatacc aggaatggaa caggaaaccc
721 ctccccacta tggatgattc caaattgaag aaggtggcca acatattctt gtgtactttg
781 tcttcactat tcactaggcc cattaaggac ataataggaa agcttaaacc tcttaacatc
841 cttaatattc tggctacatg tgattggacc ttcgcaggcg tagtggaatc catgatactc
901 ttggcagagc tctttggagt tttctggaca cccccagatg tgtctgcgat gatcgccccc
961 ttactaggag actatgaact gcaaggacct gaggaccttg cagtagaact ggtcccagtg
1021 gtaatggggg ggataggttt ggtgctagga tttaccaaag agaaaattgg aaagatgcta
1081 tcatccgctg catctacttt gagagcttgt aaagaccttg gtgcatacgg actggaaatt
1141 ttaaaattag tcataaaatg gttcttccca aagaaagagg aagaaaatga gttagctatg
1201 gtgagatcca tcgaggatgc agtgttagac ctcgaagcaa ttgaaaacaa tcacttgacc
1261 accctgctca aagataaaga cagcttggca acctacatga gaacccttga ccttgaggag
1321 gagaaagcta gaaaactctc aaccaaatct gcttcacccg atattgtggg cacaatcaac
1381 gcccttctgg caagaatcgc tgccgcacgc tccctagtgc atcgggcgaa agaagagctc
1441 tccagcaggc tgagacctgt cgttgtgatg atatcaggga aaccagggat aggaaaaact
1501 caccttgcca gggagttggc caagaagatc gcagcctccc tcacagggga ccagcgtgtg
1561 ggtcttatcc cgcgcaatgg tgttgaccac tgggacgcat acaagggtga aagagtggtc
1621 ctatgggatg actatggaat gagcaacccc atccatgacg ccctcagatt gcaggaactt
1681 gctgacactt gccccctcac gctaaattgt gacagaattg agaacaaagg gaaagtcttt
1741 gacagtgatg ccataattat caccaccaat ctggccaacc cagcaccact ggactatgtc
1801 aacttcgaag cgtgctcgag gcgcattgac ttcctcgtgt acgcagaagc tccagaggta
1861 gaaagggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc tttcagtcct
1921 gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa gaacggcaac
1981 accccgcatg gaaaaggtgt catgaaaacc ctcaccactg gttccctcat cgcccgagca
2041 tcagggctac tccatgagag actagatgaa tatgaattgc aaggcccagc cctcaccact
2101 ttcaactttg atcgcaacaa gatacttgct tttagacagc ttgctgctga aaacaagtat
2161 gggctgatgg atacaatgag agttggaaaa cagctcaagg atgtcaagac tatgccagac
2221 ctcaaacaag cactcaagaa tgtcgcgatc aggaagtgcc agatagtgta cggtggtagc
2281 acctacacac ttgaggccga tggtaagggt agtgtaaaaa ttgataaagt gcaaagtgct
2341 gctgtacaaa ctaacaatga aatagctggc gccctacacc acctaaggtg tgccagaatc
2401 agatactatg ttaagtgtgt ccaggaggca ttgtattcca tcattcaaat cgctggggct
2461 gcattcgtca ccacgcgcat cgctaagcgc atgaacatac agaatctctg gtccaagcca
2521 caggtggaag acacagaaga gacggccagc aaagatggtt gcccaaaacc caaagaagat
2581 gaagagtttg ttgtttcatc cgacgacatc aaaactgaag gcaagaaagg gaagaacaag
2641 tctggtcgtg gcaagaagca cacagccttc tcaagtaaag ggctcagtga tgaggagtac
2701 gacgagtaca agagaatcag agaagaaagg aatggcaagt attccataga agagtaccta
2761 caggatagag acaagtacta tgaggaggtg gctattgcca gggcaaccga agaagacttc
2821 tgtgaagaag aagaggccaa aatccggcag agaattttca gaccaacaag gaaacaacgc
2881 aaagaagaga gggtctctct cggcttggtc acaggttctg aaatcagaaa gagaaaccca
2941 gacgacttta agcccaaggg aaagctgtgg gctgatgatg acagaagtgt tgactacaat
3001 gaaaaactca actttgaggc cccgccaagc atctggtcgc ggatagtcaa ctttggttca
3061 ggttggggtt tctgggtctc ccccagtctg ttcataacat caacccatgt cataccccag
3121 ggtgcaaaag agttcttcgg agtctctatc aaacaaatcc agatacacaa atcaggtgaa
3181 ttctgtcgat tgagattccc aaaaccaatc aggactgatg tgacgggcat gattctagaa
3241 gaaggtgcgc ccgaaggaac cgtggccaca ctgctcatca agagaccaac tggagaactc
3301 atgcctctgg cagccagaat gggaacccat gcaaccatga agattcaagg gcgcacagtt
3361 ggaggacaaa tgggtatgct cctgacagga tccaacgcca agagcatgga cctaggcaca
3421 acaccaggtg actgcggctg tccctacatc tacaagagag ggaatgacta cgtggtcata
3481 ggggtccaca cggccgctgc ccgtggagga aacactgtca tatgtgccac ccaggggagt
3541 gagggagaag ccacacttga aggaggtgat aacaaaggaa catactgtgg tgcaccaatc
3601 ttgggcccag ggagtgctcc aaagctcagc accaaaacta aattttggag gtcatccaca
3661 acaccactcc cgcctggcac ctacgaacca gcctacctcg gtggaaaaga tcccagagtc
3721 agaggtggcc cttcattgca acaagttatg agggaccagc taaagccatt cacagaaccc
3781 agaggcaaac caccaagacc aaatgtgttg gaagctgcca agaaaaccat catcaacgtt
3841 cttgagcaaa caattgaccc accacaaaaa tggtcattct cgcaagcttg cgcatccctt
3901 gacaaaacca cctccagcgg ccatccgcac catatgcgga agaacgattg ctggaatggg
3961 gaatccttca caggaagatt ggcagatcag gcctccaagg ccaacctaat gtttgaagag
4021 ggaaagaaca tgactccagt ctacacgggt gcacttaaag atgaattggt aaagactgac
4081 aaaatttatg gtaagatcaa gaagaggctt ctttggggct cagacctggc gaccatgata
4141 cggtgcgccc gagcttttgg aggtcttatg gatgaactta aggcacactg tgtcactctt
4201 cctgtcagag ttggtatgaa catgaatgag gatggcccca ttatctttga gaaacactcc
4261 agatataaat atcactatga tgctgattat tcccggtggg actcgacaca acaaagggat
4321 gtgctggcag cagcactaga aatcatggtc aaattctctc cagaaccaca cttggctcag
4381 gtagttgcag aagacctcct ctctcctagt gtaatggatg taggtgactt tcaaatatca
4441 ataagtgagg ggctcccctc tggggtgcct tgcacctccc agtggaactc catcgcccac
4501 tggcttctca ctctttgtgc actctctgaa gtcacggacc tgtcccctga tatcattcag
4561 gccaactccc ttttctcctt ctatggtgat gatgagattg tgagcacgga cataaagttg
4621 gacccagaga agctgacagc aaaactcaag gagtacgggc tgaaaccaac ccgtcccgac
4681 aaaactgaag gaccccttgt tatctctgaa gatctggatg gcctgacatt cctccggagg
4741 actgtgaccc gtgacccagc tggttggttt ggaaaattgg aacaaagctc aattctcagg
4801 caaatgtact ggactagggg tcccaatcat gaagacccat ctgaaacaat gataccacac
4861 tcccaaagac ccatacaatt gatgtccttg ctgggcgagg ctgcactcca cggcccagca
4921 ttttacagca aaattagtaa attggttatt gcagagttga aggaaggtgg tatggatttt
4981 tacgtgccta gacaagagcc aatgttcaga tggatgaggt tctcagatct gagcacgtgg
5041 gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga atgacgccgc
5101 tccatctaat gatggtgcca cgggcctcgt cccagagatc aacaacgaga cccttccttt
5161 ggaaccggta gcgggtgcag ctattgccgc gcctgttact ggccaaaata atataattga
5221 tccctggatt agaacaaatt ttgtacaagc acccaatggg gagttcacag tctcacccag
5281 aaactctcct ggagaaattc ttctaaattt ggaattgggt cctgatttaa atccatatct
5341 ggcacattta tctagaatgt ataatgggta tgctggtggc gtagaagtcc aagtcctcct
5401 tgcagggaat gcgttcactg caggaaagat tctcttcgct gccgttccac caaatttccc
5461 agttgaattc ttgagtcctg cgcaaatcac catgttgcca cacttaatag ttgatgttag
5521 aacccttgaa cccatcatga taccactccc tgatgtcagg aacaccttct ttcattacaa
5581 taatcaacct gccaatcgta tgcgattggt agccatgttg tatacccccc tgagatctaa
5641 tggttctggt gatgatgttt tcacagtgtc atgtagagtg ctaactagac ccaccccaga
5701 ttttgagttt acatatttgg tccccccttc ggtagagtct aagactaaac ccttttctct
5761 gcccatactg accatctctg aattgaccaa ttcaagattt cctgtaccgg tggattcatt
5821 attcacagcc caaaacaata atcttaatgt tcaatgtcaa aatggtcgct gcacattaga
5881 tggtgagttg cagggaacca ctcagttgca accatcaggc atctgcgcct tcagaggcaa
5941 aataacggca gatgtacgtc caaaccacga tgacagatgg catatgcaac tgacaaatct
6001 caatggaacc cccttcgacc caacagagga tgtgccagct ccactgggca ccccagattt
6061 tacaggcctt ctcttcggag tggcgagcca aagaaatgtc caacccaacc caaacaccac
6121 cagggcacat gaagccgtga tatccacaac cagttcacag tttgtgccaa aattaggatc
6181 aattaacttt ggtagcacaa gtgaagattt cattgtgggc cagcccacaa aattcacacc
6241 agttggcatc aagattgagg acggacatgc atttgatcag tggaccctac ccaggtactc
6301 aggccattta actctcaata tgaaccttgc cccacctgtt gccccaaatt tccctggtga
6361 acaactactc ttctttaggt caaatgtccc ctgtgccggc ggcattagtg atggtgtcat
6421 cgactgcctg ctgcctcagg agtggataca gcacttttac caggagtctg ctccctccca
6481 gtccgatgtg gccctgatca gatacgtcaa ccccgacacg ggccgcacac ttttcgaggc
6541 gaaactccat agaacaggct atatcactgt tgctcattca ggtgattacc cccttgttgt
6601 cccctccaat ggatacttta gatttgattc ttgggtgaat caattttatt cacttgcccc
6661 catgggaact gggaatgggc gcaggcgggt gcagtaatgg caggagcttt catagcaggt
6721 ctagcaggtg acatgctcac caacacagtt ggctcactgg cgaacgccgg ggccaatgcc
6781 atcactcaaa agatagactt tgaaaacaac aaacagctcc aatctgcctc cttccaacat
6841 gacaaagaca tgctccaagc acaagtggct gccaccaagc agttacaggc tgacatgatc
6901 gccatcaagc aggggatact gaccgcgggc ggcttttccc ctactgatgc ggcgagagga
6961 gcagtgggtg cacccatgac caaagtcctc gactggtctg gtactcgtta ctgggctcca
7021 aattccacga agacaacagg ttattcaggg cagttcacat cagcaccagt gcacataccc
7081 acaaaaatga ttcagcctac tcctgttaaa aggactcaac ctctttcttc ctcttcaggt
7141 agtgtctata gtctttcaac acagagcact gccttgacca agccttcttc aggctcttct
7201 tctgtttctt ctgcttctac acaatctaca aaattgagtt cagtttcttc aatggataga
7261 acagcaaatt gggtaaatca gcaaagaaac ctcagcccct tcatgagtgg tgcactcaac
7321 atatctcatg taacacctcc atcgagcagg gcttcgagtt cggggacagt ctcaactgta
7381 cccaaagaag ttttggactc ctggacacct gcattcaaca cacgcaggca gccgctcttc
7441 gcacacctca gagtgagggg ggagtcacgt gtttag
//