Typing tool
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Typing tool
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Complete norovirus genomes
| PQ214836 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5097
ORF2: 5078..6700
ORF3: 6700..7506
LOCUS PQ214836 7521 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P16]/Minnesota0101/2020/USA
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION PQ214836
VERSION PQ214836.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7521)
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JOURNAL Unpublished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 7521)
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..7521
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.4 Sydney[P16]/Minnesota0101/2020/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="24-Apr-2020"
/note="genotype: GII.4 Sydney[P16]"
gene <1..5097
/gene="ORF1"
CDS <1..5097
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEQ90824.1"
/translation="KMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPK
QPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQP
DVANTAFSVPPLSLRENKEAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAI
SMARVELAPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLND
SWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIG
KIKPLNILNILATCDWTFGGIVESLILFAELFGVFWTPPDVSAMIAPLLGDYELQGPE
DLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFF
PKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLS
TKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLARE
VARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADT
CPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVE
KAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIAR
ASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKT
MEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSIQTNNELAGALHHL
KHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESEAKEEA
PKSEDNEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVT
GSEIRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPS
LFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRQDVTGMILEEGAPEGT
VATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDC
GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGP
GGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRIRGGPSLQQVMRDQLKPFTEPR
GKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWN
GETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLS
TMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS
TQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLNPEQLTAKLKE
YGLKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGRLDQSSILRQMYWTRGPN
HEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..993
/gene="ORF1"
/product="p48"
mat_peptide 994..2091
/gene="ORF1"
/product="NTPase"
mat_peptide 2092..2622
/gene="ORF1"
/product="p22"
mat_peptide 2623..3021
/gene="ORF1"
/product="VPg"
mat_peptide 3022..3564
/gene="ORF1"
/product="Pro"
mat_peptide 3565..5094
/gene="ORF1"
/product="RdRp"
gene 5078..6700
/gene="ORF2"
CDS 5078..6700
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XEQ90825.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNFTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6700..7506
/gene="ORF3"
CDS 6700..7506
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XEQ90826.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSGALPGRANLRDAVPARGPSTKPS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 aagatggcgt ctaacgacgc ttccgctgcc gttgcttgca acaacaacaa cgacaaggaa
61 aaatcttcag gtgaaggctt attcacaaat atgtcttcca ccttaaagaa agccctcggg
121 gctaggccca aacagcctgc cccgagagac gaaccacaaa agcccccaag accaccaact
181 cccgagttgg tcaagaggat accccctcct ccacctaatg gcgaagaaga agaagaacca
241 gtcattaggt atgaggttaa gagtgggatc tctggcctgc ccgagctcac aacagtcccc
301 caaccggacg tggccaacac agcatttagt gttccaccac tgagcttaag agaaaacaag
361 gaggccaagg aaccgctgac aggggcaata ctagagatgt gggacggaga gatataccac
421 tatggcctat acgtggagaa aggcttagtg ttgggtgtgc acaaaccacc tgcagccata
481 agcatggcaa gagtggagct ggcgccgctg tcattgtact ggcgtgtggt gtacactccc
541 caatacctca tctcccctga aactctcagg aggctcaacg gagaggcgtt tccttacacc
601 gcttttgaca acaactgcta tgccttttgc tgctgggtgt tagacctcaa tgactcatgg
661 cttagcagga ggatggtgca aagaacaacg ggcttcttca gaccttacca agagtggaac
721 agaaaaccct tacccaccat ggatgactcc aaaataaaga aggtagcaaa tatattccta
781 tgttcattgt ccacattatt caccagaccc ataaaagacc tcataggaaa aattaaacca
841 ttaaacatat tgaacatcct ggcaacgtgt gactggacgt ttggcggaat agtggagtct
901 ctgatattgt ttgccgaact cttcggagtt ttctggacac ccccagatgt gtctgctatg
961 atcgctccct tactcgggga ctacgagttg caagggccag aagacctcgc cgttgaactc
1021 gtacctgtgg taatgggagg gattggtttg gtgttgggat tcaccaaaga gaaaattggc
1081 aaaatgttgt cctcagcagc atcaacactc agggcttgta aagatcttgg tgcctatggc
1141 ttagagatac tcaaattggt catgaagtgg tttttcccaa agaaagagga ggccaatgag
1201 ctagccatgg tgagggccat agaagatgcc gtactagacc ttgaggcaat agaaaataac
1261 cacatgacaa ccctgttgaa agacaaagac agcttagcaa catacatgaa aacactggac
1321 atggaggagg agaaagccag aaggttgtcc acaaaatctg catcccctga catagttggg
1381 acaatcaacg ccctgctggc tcgaatagca gcagccaggt cattagtcca cagggccaag
1441 gaagaactgt ctagcaggat aaggccagta gttgttatga tatctggcaa accaggaata
1501 ggcaaaactc atctggccag agaggtggca agaaaggtgg catccactct cacaggggat
1561 caaagagtcg gactcatacc aagaaacggt gtggaccatt gggatgcata caaaggtgag
1621 agagtcgtgc tgtgggacga ctatggcatg agtaacccca ttcatgatgc tctccgcata
1681 caagaattgg ctgatacgtg tccccttacc ttaaattgcg acagaattga aaataagggg
1741 aaagtttttg acagtgaagt cataataatt acaacaaatc tcgccaaccc agccccactt
1801 gattatgtca actttgaggc ctgctccagg agaattgatt tcctggtgta tgctgaggca
1861 ccagaagtag aaaaggcaaa acgggacttt cctggtcagc cagatatgtg gaaggacgct
1921 ttcaagccgg acttttcaca catcaagcta cagcttgcac ctcagggcgg ctttgacaag
1981 aatggcaaca ccccacatgg gaaaggagtg atgaagaccc tcactaccgg ttctctgatt
2041 gcccgtgcat caggcctact gcatgagagg atggatgaat ttgaactcca gggtcccaca
2101 atcaccactt tcaatttcga ccggaacaga atcacagcat tcagacaatt ggctgcagaa
2161 aacaagtatg gactggtgga caccatgaaa gttggcaatc aactaaaagg agtgaaaacc
2221 atggaagaac tcaaacaagc aatcaggaat gtgaccatca agaggtgccg gatcatttac
2281 ggtggctcca cgtatgacct tgaatctgat ggcaagggca aagttttggt ggaaaaggtc
2341 aagaacacct ctatacagac caacaacgag ttggccgggg ccctgcacca tcttaaacat
2401 gcccgaatca ggtactatgt caaatgtgtg caagaagcag tctattccat catacaaatt
2461 gccggcgctg cgtttgtcac cacgcgcatt gcacgccgca tgaacataca agagctctgg
2521 tcgaagccac aattagatca aaatgaatca gaggctaagg aagaggcccc caagtcagaa
2581 gataacgagt tcatcatatc ttctaaggat atcaaggagg aaggaaagaa gggcaaaaac
2641 aaaactggcc gcggcaagaa acacaccgca ttctccagca agggcttgag cgatgaggag
2701 tatgacgagt acaagaggat aagagaagag agaaatggga agtactctat agaggagtat
2761 cttcaagaca gagacaggta ttatgaggag ctcgccattg ccaaggccac ggaagaagat
2821 ttctgtgaag aggaggagat caaaatccgt cagagaattt tccgtcccac caggaaacaa
2881 agaaaggaag agagggccac actagggctg gtaacaggtt cagaaatcag aagaagaaac
2941 cctgatgatt tcaaacccaa agggaagctg tgggccgatg acaacagaag tgttgactac
3001 aatgagaaac tggattttga ggccccccca agcatatggt ctaggattgt gagctttggt
3061 tctggctggg gcttctgggt atcaccaagc ctgttcataa catcaaccca tgtgatccct
3121 gcaggcataa cagaagcatt tggagtcccc atcaaacaaa ttcagatcca caaatcaggt
3181 gaattttgcc gattcagatt cccaaaacca attagacaag atgtgacagg aatgatcttg
3241 gaagaaggtg cgcctgaagg caccgtggca actgtgctca tcaaacgccc taccggagag
3301 ctcatgcctc ttgcagccag aatgggaaca cacgcaacca tgaagattca aggtcgcatg
3361 gttggtggac agatgggtat gctgctcact ggatcaaatg ctaaaggaat ggatttggga
3421 acaactcctg gtgactgtgg ctgcccttac atctataaaa ggggcaatga ctatatagtc
3481 attggggtgc acactgcagc agcccgtggt ggaaacaccg tcatctgtgc cacacaggga
3541 agtgagggtg aggcaactct tgagggtgga gatgacaaag gaacatactg tggggcaccc
3601 attctaggcc ctgggggtgc accaaaattg agcactaaaa ccaaattttg gaggtcatca
3661 aacacgcccc ttccaccagg gacgtatgag cctgcctacc tcggtggccg tgacccgcgt
3721 attaggggtg ggccctcctt acaacaggta atgagagacc agttgaagcc attcactgaa
3781 cccaggggca aacctccaag accaagtgtt ttggaagcag ccaaacaaac cattatcaat
3841 gtccttgaac aaaccctgga tcctccacaa aaatggacat atgcacaggc gtgtgcctca
3901 cttgacaaaa ccacctccag cgggcatccc catcacgtcc gaaagaatga attctggaat
3961 ggtgagacct tcactggtaa attggcagac caagcatcaa aagcaaacct aatgtttgag
4021 gaagggaaac acatgacacc agtgtacaca gcagcactca aggacgagct agtcaagact
4081 gagaagatct atggaaagat caagaagaga ctgctctggg gctctgactt gtccaccatg
4141 atccggtgcg ctaggtcatt tggtgggctc atggacgaga tgaaggcaca ctgcatatca
4201 ctcccagtac gagttggcat gaatatgaat gaagatggcc caataatatt tgagaaacat
4261 tccagataca aatatcacta tgatgcagac tactctcgtt gggattcaac acaacagagg
4321 gcagtattag cagcagcctt ggaaattatg gtcagattct ctgcagaacc acaattggca
4381 caaatagtcg ctgaggatct actggcccct agtgtagtag atgtaggaga ctttaaaatc
4441 acaataaatg aagggctccc atctggcgtg ccatgcactt ctcaatggaa ctccatcgca
4501 cactggctgc taaccctctg tgccttgtct gaagtcacca aactgtcccc tgacattata
4561 caagcaaatt ccatgttctc attttacggt gatgacgaga ttgtcagcac cgacataaaa
4621 ttgaaccctg aacagttgac cgccaagttg aaggagtacg gcctgaaacc aacccgccca
4681 gacaagaccg agggacccct gatcatcagt gaagatttgg acggactcac tttcctccga
4741 aggacggtga ctcgtgaccc agctggctgg tttggaagac tggaccaaag ttcaattttg
4801 aggcagatgt actggactag aggaccaaat catgaagacc ccaatgagac aatgataccc
4861 cattctcaaa gacccataca gctcatggca ctgcttggtg aagcctctct tcacggaccc
4921 tctttctaca gtagaatcag taaattggtc ataactgaac ttaaagaagg tgggatggac
4981 ttttacgtgc caaggcagga acccatgttc aggtggatga ggttttctga cttgagcacg
5041 tgggagggcg atcgcaatct ggctcccagc tttgtgaatg aagatggcgt cgagtgacgc
5101 caacccatct gatgggtccg cagccaacct cgtaccagag gtcaacaatg aggttatggc
5161 tttggagccc gttgttggtg ccgctattgc ggcacctgta gcgggccaac aaaatgtaat
5221 tgacccctgg attagaaata attttgtaca agcccctggt ggagagttta cagtatcccc
5281 tagaaatgct ccaggtgaaa tactatggag cgcgccccta ggccctgacc taaatcctta
5341 cctatcccat ttggccagaa tgtacaatgg ttatgcaggt ggttttgaag tgcaggtaat
5401 tctcgcgggg aacgcgttca ccgccgggaa gattatattt gcagcagtcc caccaaattt
5461 tccaactgaa ggcttaagcc ctagccaggt cactatgttc ccccatataa tagtagatgt
5521 tagacaattg gaacctgtgc tgatcccctt acccgatgtt aggaataatt tctatcatta
5581 caatcagtca aatgactcca ctattaagtt gatagcaatg ttgtacacac cacttagggc
5641 taataatgct ggggatgatg ttttcacagt ttcgtgccga gttctcacga gaccatcccc
5701 cgattttgat ttcatattct tagtaccacc cacagttgag tcaagaacta aaccattctc
5761 tgtcccagtt ttaactgttg aggagatgac caattcaaga ttccccatcc ctttggaaaa
5821 gttgttcaca ggccccagca gtgcatttgt tgttcaacca caaaacggca gatgcacaac
5881 tgatggcgtg ctcctaggca ccacccaact ttctcctgtc aacatctgca ccttcagagg
5941 ggatgtcacc cacatcacag gtagtcacaa cttcactatg aatttggctt ctcaaaattg
6001 gaacaactat gacccaacag aagaaatccc agccccccta ggaactccag attttgtggg
6061 gaagatccaa ggcatgctca cccaaaccac aaggacagat ggttcaacac gcggccacaa
6121 agctacagtg tacactggga gcgccgactt tgctccaaaa ttgggtagag tacaatttga
6181 aactgacaca aaccatgatt ttgaagctaa tcaaaacaca aagttcaccc cagtcggtgt
6241 catccaagat ggtagcacca cccaccgaaa cgaaccccaa cagtgggtgc tcccaagtta
6301 ctcaggcaga aatactcaca atgtacattt ggcccccgct gtagccccca cctttccggg
6361 tgagcaactc ctcttcttca gatccaccat gcccggatgc agcgggtacc ccaacatgga
6421 cttggactgt ctgctccccc aggaatgggt gcagtacttc taccaagagg cagccccagc
6481 acaatctgat gtggctctgc taagatttgt gaatccagac acaggtaggg ttttgtttga
6541 gtgcaagctt cacaaatcag gctatgtcac agtggctcac actggccaac atgatttggt
6601 tatccccccc aatggttact ttaggtttga ttcctgggtc aaccagttct acacgcttgc
6661 ccccatggga aatggaacgg ggcgtagacg tgcagtataa tggctggagc tttctttgct
6721 ggattggcgt ctgatgtcct tggctctgga cttggttccc ttatcaatgc tggggctggg
6781 gccatcaacc aaaaagttga gtttgaaaat aacagaaaat tgcaacaagc atccttccaa
6841 tttagcagca atttgcaaca ggcttccttt caacatgaca aggagatgct ccaagcacaa
6901 attgaggcta ccaaaaagct acaacaggaa atgatgagag ttaagcaggc aatgctccta
6961 gagggtgggt tctctgagac agatgcagcc cgcggggcaa ttaacgcccc catgacaaag
7021 gctttggact ggagcgggac aaggtactgg gctccagatg ctagaattac aacatacaat
7081 gcaggccact tttccacccc tcaaccatcg ggggcactgc caggaagagc taatcttagg
7141 gatgctgtcc ctgctcgtgg accctccacc aaaccttcca actcttctac tgccacctct
7201 gtgtactcaa atcaaactat ttcaacgaga cttggttcta cagctggttc tggaaccagt
7261 gtctcgagcc tcccgtcaac tgcaaggact aggagctggg ttgaggatca gaataggaat
7321 ttgtcacctt tcatgagggg ggcccacaac atatcatttg tcaccccacc atctagcaga
7381 tcctctagcc aaggcacagt ctcaaccgtg cctaaagaaa ttttggactc ctggactggc
7441 gctttcaaca cgcgcaggca gcctctcttc gctcacattc gtaagcgagg ggagtcacgg
7501 gtgtaatgtg aaaagacaaa a
//