Typing tool
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Typing tool
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Complete norovirus genomes
| PQ214832 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 5..5098
ORF2: 5079..6701
ORF3: 6701..7507
LOCUS PQ214832 7522 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P16]/Minnesota0017/2023/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ214832
VERSION PQ214832.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7522)
AUTHORS Barclay,L., Montmayeur,A.M., Cannon,J.L., Mallory,M.L., Reyes,Y.I.,
Lindesmith,L., Wall,H., Baric,R.S., Vinje,J. and Chhabra,P.
TITLE Norovirus GII.4 evolution in the United States since emergence of
GII.4 Sydney
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7522)
AUTHORS Cebelinski,E., Barclay,L., Montmayeur,A.M., Vinje,J. and Chhabra,P.
TITLE Direct Submission
JOURNAL Submitted (21-AUG-2024) Viral Gastroenteritis Branch, Centers for
Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA
30329, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. v. 11.1.2; SPAdes v. v. 3.6
Sequencing Technology :: Sanger dideoxy sequencing; Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7522
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.4 Sydney[P16]/Minnesota0017/2023/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="12-Feb-2023"
/note="genotype: GII.4 Sydney[P16]"
gene 5..5098
/gene="ORF1"
CDS 5..5098
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEQ90814.1"
/translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEPVIRYEVKSGISGLPELTTVPQPD
VANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAIS
MARVELAPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKVKKVANIFLCSLSTLFTRPIKDLIGK
IKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREV
ARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTC
PLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTM
EELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSIQTNNELAGALHHLK
HARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAP
KSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTG
SEIRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSL
FITSTHVIPAGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTV
ATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCG
CPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPG
GAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRG
KPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFWNG
ETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKVKKRLLWGSDLST
MIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDST
QQRAVLATALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQ
WNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEY
GLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNH
EDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPM
FRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 5..994
/gene="ORF1"
/product="p48"
mat_peptide 995..2092
/gene="ORF1"
/product="NTPase"
mat_peptide 2093..2623
/gene="ORF1"
/product="p22"
mat_peptide 2624..3022
/gene="ORF1"
/product="VPg"
mat_peptide 3023..3565
/gene="ORF1"
/product="Pro"
mat_peptide 3566..5095
/gene="ORF1"
/product="RdRp"
gene 5079..6701
/gene="ORF2"
CDS 5079..6701
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XEQ90815.1"
/translation="MKMASSDANPSDGSAASLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRSNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNFTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAV"
gene 6701..7507
/gene="ORF3"
CDS 6701..7507
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XEQ90816.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHLSTPQPSGALPGRANFREAAPARGPSTKPS
NSSIATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gcttgcaaca acaacaacga
61 caaggaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc
121 cctcggggct aggcccaaac agcctgcccc gagagacgaa ccacaaaagc ccccaagacc
181 accaactccc gagttggtca agaggatacc ccctcctcca cctaatggcg aagaagaacc
241 agtcattagg tatgaggtta agagtgggat ctctggcctg cccgagctca caacagtccc
301 ccaaccggac gtggccaaca cagcatttag tgttccacca ctgagcttga gagaaaacag
361 ggaggccaag gaaccgctga caggggcaat actggagatg tgggacggag agatatacca
421 ctatggcctg tacgtggaga aaggcttagt gttgggtgtg cacaaaccac ctgcagccat
481 aagcatggca agagtggagc tggcgccgct gtcactgtac tggcgtgtgg tgtacactcc
541 ccaatacctc atctcccctg agactctcag gaggctcaac ggagaggcgt ttccttatac
601 cgcttttgac aacaactgct acgctttttg ctgctgggtg ttagacctca atgactcatg
661 gcttagcagg aggatggtgc aacgaaccac gggcttcttc aggccttacc aagagtggaa
721 cagaaaaccc ttacccacca tggatgactc caaagtgaag aaggtagcaa atatattcct
781 atgttcattg tccacattat tcaccagacc cataaaagat ctcataggaa aaattaaacc
841 attaaacata ttgaacatcc tggcaacgtg tgattggacg tttgccggaa tagtggagtc
901 tctgatattg cttgccgaac tcttcggagt tttctggaca cccccagatg tgtctgctat
961 gatcgctccc ttacttgggg actacgagtt gcaggggcca gaggacctcg ccgttgaact
1021 cgtacctgtg gtaatgggag ggattggttt ggtgttggga ttcaccaaag agaaaattgg
1081 caaaatgttg tcctcagcag catcaacact cagggcttgt aaagatcttg gtgcctatgg
1141 cttagagata ctcaaattgg tcatgaagtg gtttttccca aagaaagaag aggccaatga
1201 gctagctatg gtgagggcca tagaggatgc cgtactagat cttgaggcaa tagaaaataa
1261 ccacatgaca accctgttga aagacaaaga cagcttagca acatacatga aaacactgga
1321 catggaggag gagaaagcca gaaggttgtc cacaaaatct gcatcccctg acatagttgg
1381 gacaatcaac gccctgctgg ctcggatagc agcagccagg tcattagtcc acagggccaa
1441 ggaagaactg tctagcagga taaggccagt agttgttatg atatctggca aaccaggaat
1501 aggtaaaact catctagcca gagaggtggc aagaaaggtg gcatccactc tcacagggga
1561 tcaaagagtc ggactcatac caagaaacgg tgtggaccat tgggatgcat acaaaggtga
1621 gagagtcgtg ctgtgggacg actatggcat gagtaacccc attcatgatg ctctccgcat
1681 acaagaattg gctgatacgt gtccccttac cttaaattgc gacagaattg aaaataaggg
1741 gaaagttttt gacagtgaag ttataataat tacaacaaac ctcgccaacc cagccccact
1801 tgattatgtc aactttgagg cctgctccag gagaattgat ttcctggtgt acgctgaggc
1861 accagaagta gaaaaggcaa aacgggactt tcctggtcag ccagatatgt ggaaggacgc
1921 cttcaaaccg gacttttcgc acatcaagct acagcttgca cctcagggtg gctttgacaa
1981 gaatggcaac accccacatg ggaaaggagt gatgaagacc ctcactaccg gttctctgat
2041 tgcccgtgca tcaggcctat tgcatgagag gatggatgaa tttgaactcc aaggtcccac
2101 aatcaccact ttcaacttcg accggaacag aatcacagca ttcagacaat tggctgcaga
2161 aaacaagtat ggactggtgg acaccatgaa agttggcaat caactaaaag gagtgaaaac
2221 catggaagaa ctcaaacaag caatcaggaa tgtgaccatc aagaggtgcc ggattatcta
2281 cggtggctcc acgtatgacc ttgaatctga tggcaagggc aaagttttgg tggaaaaggt
2341 caagaacacc tctatacaga ccaacaacga gttggccggg gccctgcatc atctcaaaca
2401 tgcccgaatc aggtactatg tcaaatgtgt gcaagaagca gtctactcca tcatacaaat
2461 tgccggcgct gcgtttgtca ccacgcgcat tgcacgccgc atgaacatac aagagctctg
2521 gtcgaagcca caattagatc aaaatgaatc agagactaag gaagaggccc ccaagtcaga
2581 agatgacgag ttcatcatat cttctaagga tatcaaggag gaaggaaaga agggcaaaaa
2641 caaaactggc cgtggcaaga aacacaccgc attctccagc aagggcttaa gcgatgagga
2701 gtatgacgag tacaagagga taagagaaga gagaaatggg aagtactcta tagaagagta
2761 tcttcaagac agagacaggt attatgagga gctcgccatt gccaaggcca cggaagaaga
2821 cttctgtgaa gaggaggaga tcaaaatccg ccagagaatt tttcgtccca ccaggaaaca
2881 aagaaaggaa gagagggcca cactagggct ggtaacaggt tcagaaatca gaagaagaaa
2941 ccctgatgac ttcaaaccta aagggaagct gtgggccgat gacaacagaa gtgttgacta
3001 caatgaaaaa ctggattttg aggccccccc aagcatatgg tctaggattg tgagctttgg
3061 ttctggctgg ggcttctggg tgtcaccaag cctgttcata acatcaactc atgtgatccc
3121 tgcgggcata acagaagcat ttggagtccc catcaaacag attcaggtcc acaaatcagg
3181 tgaattttgc cgattcagat tcccaaaacc aatcagacca gatgtgacag gaatgatctt
3241 ggaagagggt gcgcctgaag gcaccgtggc aactgtgctc atcaaacgcc ccaccggaga
3301 gctcatgcct cttgcagcca gaatgggaac acacgcaacc atgaagattc aaggccgcat
3361 ggttggtgga cagatgggta tgctgctcac tggatcaaat gctaaaggga tggatttggg
3421 aacaactcct ggtgactgtg gctgccctta catctataaa aggggcaatg actatatagt
3481 cattggggtg cacaccgcag cagcccgtgg tggaaacacc gtcatctgtg ccacacaggg
3541 aagtgaaggt gaggcaactc ttgagggtgg agatgacaaa ggaacatact gtggggcacc
3601 cattctaggc cctgggggtg caccaaaatt gagcactaaa accaaatttt ggaggtcatc
3661 gaacacgccc cttccaccag ggacgtacga accagcctac ctcggtggcc gtgacccgcg
3721 tgttaagggt gggccctcat tacaacaggt aatgagagac cagttgaagc cattcactga
3781 acccaggggc aaacctccaa gaccaagtgt tttggaagca gccaaacaaa ccatcatcaa
3841 tgtccttgaa caaaccctgg accctccgca aaagtggaca tacgcacagg cgtgtgcctc
3901 acttgacaaa accacctcca gcgggcatcc ccaccatgcc cgaaagaatg aattctggaa
3961 tggtgagacc ttcactggta aattggcaga ccaagcatca aaagcaaacc taatgttcga
4021 ggaagggaaa cacatgacac cagtgtacac agcagcactc aaggacgagc tagtcaagac
4081 tgagaaaatc tatggaaagg tcaagaagag actgctctgg ggctctgact tgtccaccat
4141 gatccggtgc gctaggtcat ttggtggact catggacgag atgaaggcac actgcatatc
4201 actcccagta cgagttggca tgaacatgaa tgaagatggc ccaataatat ttgagaaaca
4261 ttccaggtac aaatatcact atgatgcaga ctactcccgt tgggattcaa cacagcagag
4321 ggcagtatta gcaacagcct tggaaattat ggtcagattc tctgcagaac cacaattggc
4381 acaaatagtc gctgaggatc tactggcccc tagtgtagta gatgtaggag actttaaaat
4441 cacaataaat gaagggctcc catctggcgt gccatgcact tctcaatgga actccattgc
4501 acactggctg ctaactctct gtgccttgtc tgaagtcacc aaactgtccc ctgacattat
4561 acaagcaaat tccatgttct cattttacgg tgatgacgag attgtcagca ccgacataaa
4621 attggaccct gaacagttga ccgccaagtt gaaggagtac ggcctgaaac caacccgccc
4681 agacaagacc gagggacctc tgattatcag tgaagatctg aacggactca ctttcctccg
4741 aaggacggtg actcgtgacc cagctggctg gtttggaaaa ctggaccaaa gttcaatttt
4801 gaggcagatg tactggacta gagggccaaa tcatgaagac cccaatgaga caatgatacc
4861 ccattctcag aggcccatac agctcatggc actgcttggt gaagcctctc ttcacggacc
4921 ctctttctac agtagaatca gtaaattggt cataactgag cttaaagaag gtggaatgga
4981 cttttacgtg ccaaggcagg aacccatgtt caggtggatg aggttctctg acttgagcac
5041 gtgggagggc gatcgcaatc tggctcccaa ctttgtgaat gaagatggcg tcgagtgacg
5101 ccaacccatc tgatgggtcc gcagccagcc tcgtaccaga ggtcaacaat gaggtcatgg
5161 ctttggagcc cgttgttggt gccgctattg cggcacctgt agcgggccaa caaaatgtaa
5221 ttgacccctg gattagaagt aattttgtac aagcccctgg tggggagttc acagtgtccc
5281 ctagaaatgc tccaggtgaa atactatgga gcgcgcccct aggccctgac ctaaatccct
5341 atctatccca tttggccaga atgtacaatg gttatgcagg tggttttgaa gtgcaggtaa
5401 ttctcgcggg gaacgcgttc accgccggga agattatatt tgcagcagtc ccaccaaatt
5461 ttccaactga aggcttaagc cctagccagg taactatgtt cccccatata atagtagatg
5521 ttagacaatt ggaacctgtg ctgatcccct tacccgatgt taggaataat ttctaccatt
5581 acaatcagtc aaatgattcc actattaagt tgatagcaat gttgtacaca ccacttaggg
5641 ctaataatgc tggggatgat gttttcacag tttcgtgccg agttctcacg agaccatccc
5701 ccgattttga tttcatattc ttagtgccac ccacagttga gtcaagaact aaaccattct
5761 ctgtcccagt tttaactgtt gaggagatga ccaattcaag attccccatc cctttggaaa
5821 agttgttcac aggccccagc agtgcatttg ttgttcaacc acaaaacggc agatgcacaa
5881 ctgatggcgt gctcctaggc accacccaac tttctccagt caacatctgc acctttagag
5941 gggacgtcac ccatatcaca ggtagtcaca acttcactat gaatttggct tctcaaaatt
6001 ggaacaacta tgacccaaca gaagaaatcc cagcccccct aggaactcca gattttgtgg
6061 ggaagatcca aggcatgctc acccaaacca caaggacaga tggttcaaca cgtggccaca
6121 aagctacagt gtacactggg agcgccgact ttgctccaaa actgggtaga gttcaatttg
6181 aaactgacac aaaccatgac tttgaagcta atcaaaacac aaagttcacc ccagtcggtg
6241 tcattcaaga cggtagcacc acccaccgaa acgaacctca acagtgggtg ctcccaagtt
6301 actcaggcag aaatactcac aatgtacatt tggcccctgc tgtagccccc acctttccgg
6361 gtgagcaact cctcttcttc agatccacca tgcccgggtg cagcgggtac cccaacatgg
6421 atttggactg tctgctcccc caggaatggg tgcagtactt ctaccaagag gcagccccag
6481 cacaatctga tgtggctctg ctaagatttg tgaacccaga cacaggtagg gttctgtttg
6541 agtgcaagct tcacaaatca ggctatgtta cagtggctca cactggccaa catgatttgg
6601 ttattccccc aaatggttac tttaggtttg attcctgggt caaccagttc tacacgcttg
6661 cccccatggg aaatggagcg gggcgtagac gtgcagtata atggctggag ctttctttgc
6721 tggtttggca tctgatgtcc ttggctctgg acttggttcc cttatcaatg ctggggctgg
6781 ggccatcaac caaaaagttg agtttgaaaa taacagaaaa ttgcaacaag catccttcca
6841 atttagcagc aatttgcaac aggcttcctt tcaacatgat aaagagatgc tccaagcaca
6901 aattgaggcc accaaaaagt tacagcagga aatgatgaga gttaagcaag caatgctcct
6961 agagggtggg ttctctgaga cagatgcagc ccgcggggca atcaacgccc ccatgacgaa
7021 ggctttggac tggagcggga caaggtactg ggctccagat gctagaatta caacatacaa
7081 tgcaggccac ctttccaccc ctcaaccatc gggggcactg ccaggaagag ctaattttag
7141 ggaagctgcc cctgctcgtg gaccctccac taaaccttct aactcttcta ttgctacctc
7201 tgtgtattca aatcaaacta tttcaacgag acttggttct acagctggtt ctggaaccag
7261 tgtctcgagc ctcccgtcaa ctgcaagaac taggagctgg gttgaggatc agaataggaa
7321 tttgtcacct ttcatgaggg gagcccacaa catatcattt gtcaccccac catctagcag
7381 atcctctagc caaggcacag tctcaaccgt gcctaaagaa attttggact cctggactgg
7441 cgctttcaac acgcgcaggc agcctctctt cgctcacatt cgtaggcgag gggagtcacg
7501 ggtgtgatgt gaaaagacaa aa
//