Typing tool
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Typing tool
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Complete norovirus genomes
| PQ195913 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS PQ195913 7528 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P31]/Huron0309/2020/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ195913
VERSION PQ195913.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7528)
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JOURNAL Unpublished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 7528)
AUTHORS Brandt,E., Barclay,L., Montmayeur,A.M., Vinje,J. and Chhabra,P.
TITLE Direct Submission
JOURNAL Submitted (16-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..7528
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.4 Sydney[P31]/Huron0309/2020/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="18-Mar-2020"
/note="genotype: GII.4 Sydney[P31]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEJ39051.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSNMAVTFKRALGARP
KQPPPKEPPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKEGVSGLPELTTVIQPE
ETNTAFSVPPLNQRENRDAKEPITGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS
LAKVELTPLSLFWRPVYTPQYLISPDTLRRLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
LKPLNILNILATCDWTFPGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTM
PDLKQALKNVAIKRCQIVYNGDTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDIEETASKDGC
PKPKEDEEFVVSSDDVKIEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPRPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 5..994
/gene="ORF1"
/product="p48"
mat_peptide 995..2092
/gene="ORF1"
/product="NTPase"
mat_peptide 2093..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..6707
/gene="ORF2"
CDS 5085..6707
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XEJ39052.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNIIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNFRMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFAPKLGTVQFETDTDHDFEVNQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVL"
gene 6707..7513
/gene="ORF3"
CDS 6707..7513
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XEJ39053.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAVLLEGGFSETDAARGAIN
APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSVALPGRANLRDAAPARGSSSKSS
NYSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga
61 caccgcaaaa tcttcaagtg acggcgtgct ttctaacatg gctgtcactt tcaaacgggc
121 cctcggggcg cggcctaaac agccgccccc gaaggagcca ccacccagac ccccacgacc
181 acccacacca gaactggtta aaaagatccc tcctccccca cccaacgggg aggatgaact
241 agtggtttct tacagcgcca aagaaggcgt ttctggattg cctgagctca ccactgtcat
301 ccaaccggaa gaaaccaata cggcgttcag tgttcccccg ctcaaccaaa gggagaacag
361 ggacgccaag gaaccaataa ctggaacaat tattgaaatg tgggatggag aaatctacca
421 ttatggcctg tacgtggaac ggggtcttat acttggtgtg cataagccac cggcagccat
481 cagccttgcc aaggtcgagc taacaccact ctctttgttc tggagacctg tgtacacccc
541 ccagtacctt atctctccag acactcttag gagactacat ggagagacat tcccctacac
601 cgcatttgac aacaactgct acgccttctg ctgttgggtg ttagatctaa acgactcatg
661 gctaagtagg agaatgattc agagaacaac aggtttcttc agaccatacc aggaatggaa
721 caggaaaccc ctccccacta tggatgactc caaattgaag aaggtagcta acatattctt
781 gtgcaccttg tcttcactat ttaccagacc cattaaggat ataataggaa aattaaaacc
841 tcttaacatc ctcaacattt tggctacatg tgattggacc ttcccaggca tagtagaatc
901 cctaatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gatcgccccc ttactaggtg attatgaact gcaaggacct gaggaccttg cagtagaact
1021 ggtcccagtg gtgatggggg ggataggttt ggtgctagga tttaccaaag agaaaattgg
1081 aaagatgctg tcgtccgctg catccacttt gagagcttgt aaagaccttg gtgcatacgg
1141 actggaaatt ttgaaattgg tcatgaaatg gttcttccca aagaaagagg aagcaaatga
1201 actggctatg gtgagatcca tcgaggacgc agtgctagac ctcgaggcaa ttgaaaacaa
1261 ccacatgacc accctgctca aggacaaaga cagcctggcg acctatatga gaacccttga
1321 ccttgaggag gagaaagcta gaaaactctc aaccaagtct gcgtcacctg atattgtggg
1381 cacaatcaac gctcttctgg ctcgaatcgc cgctgcacgc tccctagtgc accgggcgaa
1441 agaggagctc tccagcaggc cgagacctgt cgttgtgatg atatcgggga gaccagggat
1501 aggaaaaacc caccttgcca gggagttggc caaaaagatc gcagcctccc tcacagggga
1561 ccagcgtgta ggcctgatcc cacgcaatgg cgtcgaccac tgggacgcat acaagggtga
1621 aagagttgtc ctatgggacg actatgggat gagcaacccc atacacgatg ccctcaggtt
1681 gcaggaactt gctgacactt gccccctcac gctaaactgt gacaggattg agaacaaagg
1741 aaaagtcttt gacagtgatg ccataatcat caccaccaat ctggccaacc cagcaccact
1801 ggattacgtc aattttgaag cgtgctcgag gcgcattgat ttcctcgtgt acgcggaggc
1861 tcctgaagta gagaaggcaa aacgcgactt cccaggccaa cctgacatgt ggaagaacgc
1921 ttttagttcc gacttctcac acataaaact ggcactggct ccacagggtg gttttgacaa
1981 gaacggcaac accccgcatg gaaaaggtgt catgaagacc ctcaccactg gctctcttat
2041 cgctcgagcg tcagggctgc tccatgaaag gctagatgaa tatgagctac aaggcccagc
2101 cctcactact ttcaactttg accgcaacaa gatacttgct tttagacagc ttgctgctga
2161 aaacaagtat gggctgatgg acacaatgag agttggaaaa cagctcaagg atgttaagac
2221 catgccagac ctcaaacaag cactcaagaa tgtcgcgatc aagagatgcc agatagtgta
2281 caatggtgac acctacacac ttgaggccga cggcaagggt agtgtgaaag ttgacaaagt
2341 gcagagtgcc actgtgcaaa ccaacaatga gctagccggc gccctacacc atctaaggtg
2401 cgccagaatc agatactatg ttaagtgtgt ccaggaggca ctgtattcca tcatccaaat
2461 cgctggggct gcgtttgtca ccacgcgcat cgccaagcgc atgaacatac aaaatctctg
2521 gtccaagcca caggtggaag acatagaaga gacggccagt aaagatggtt gcccaaaacc
2581 caaagaagat gaagagttcg tcgtttcatc cgacgacgtc aaaatcgagg gtaagaaggg
2641 gaagaacaag tccggccgtg gcaaaaagca cacagccttc tcaagtaaag ggctcagtga
2701 tgaggagtac gatgagtaca agagaatcag ggaagaaagg aacggtaagt actccataga
2761 agagtacctt caggacagag acaagtacta tgaggaggtg gccattgcca gggcaactga
2821 ggaggacttc tgtgaagaag aggaggccaa aatccggcag agaattttca gaccaacaag
2881 gaaacaacgc aaagaagaaa gggcctctct aggcttggtc acgggctcag aaatcaggaa
2941 gagaaaccca gaagacttca agcccaaggg aaagctgtgg gctgatgatg acagaagtgt
3001 tgactacaac gagaaactca actttgaggc cccgccaagc atctggtcga ggatagtcaa
3061 ctttggttca ggttggggct tctgggtctc ccccagtttg ttcataacat caacccatgt
3121 cataccccag ggtgcaaaag agttcttcgg agtccccatc aaacaaatcc agatacacaa
3181 atcaggtgaa ttctgccgat tgagattccc aagaccaatc agaactgatg taacgggcat
3241 gattctggaa gaaggtgcgc cagaaggaac cgtggccaca ctgctcatca agagaccaac
3301 tggggagctt atgcctttgg cagccaggat gggaacccat gcgaccatga agattcaggg
3361 gcgcacagtt ggaggacaga tgggtatgct cttgacagga tccaacgcta agagtatgga
3421 cttgggcaca acaccaggcg actgcggttg tccctatatc tacaaaagag ggaatgacta
3481 tgtggtcata ggagtccata cagcagctgc ccgtggaggt aacactgtca tctgtgccac
3541 ccagggtagt gagggagaag ccacacttga aggaggtgac aacaaaggaa cgtactgtgg
3601 tgcaccaatc ttgggcccag ggagcgctcc gaaactcagc accaagacta agttttggag
3661 atcatccaca acgccactcc caccaggcac ctacgagcca gcctacctcg gtggcaagga
3721 tcccagagtc aaaggtggtc cctcattgca acaagttatg agggaccaac taaagccatt
3781 cacagaaccc agaggaaaac caccaagacc aaatgtgttg gaagctgcca agaaaaccat
3841 cattaatgtt ctcgagcaaa caattgaccc accccaaaaa tggtcattcg cgcaagcttg
3901 cgcatccctt gacaaaacca cctccagcgg ccatccgcac catatgcgga aaaacgattg
3961 ctggaatggg gagtccttca cgggaaaatt ggcagatcag gcctccaagg ccaacctaat
4021 gtttgaagag ggaaagaaca tgaccccagt ctacactggt gcacttaaag atgaattggt
4081 gaagactgat aaaatttatg gtaaaatcaa gaagaggctt ctgtggggct cagacctagc
4141 gactatgata cggtgcgccc gggcttttgg aggccttatg gatgaactca aggcgcactg
4201 tgtcaccctt cctgtcagag ttggtatgaa catgaatgaa gatggcccca taatctttga
4261 aaagcactcc agatataggt atcattatga tgctgattac tccagatggg actcaacaca
4321 acaaagggat gtgctagcag cagcactaga aatcatggtt aagttctccc cagaaccgca
4381 cttggcccag atagttgcag aagacctcct ttcccctagt gtaatggatg tgggtgactt
4441 tcagatatca ataagtgaag gactcccctc cggggtgcct tgcacctccc aatggaattc
4501 cattgcccac tggctcctta ccctttgtgc actctctgaa gtcacagacc tgtcccctga
4561 catcatccag gccaactccc ttttctcctt ctatggtgat gacgagattg tgagcacaga
4621 cataaagttg gacccagaga agctgacagc aaaactcaag gagtacggac taaagccaac
4681 ccgtcccgac aaaactgaag gacccctcgt tatctctgaa gacctggatg gcctgacgtt
4741 ccttcggagg actgtgaccc gcgatccagc tggctggttt ggaaagttgg aacaaagctc
4801 aatcctcagg caaatgtact ggaccagggg tcccaaccat gaagatccat ctgaaacaat
4861 gataccacac tcccaaaggc ccatacaatt gatgtccttg ctaggtgagg ctgcgctcca
4921 cggcccggca ttttacagca aaattagcaa attggtcatt gcagaattga aggaaggtgg
4981 tatggatttt tacgtgccca gacaagagcc aatgtttaga tggatgagat tctcagattt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggctct ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa
5221 acataattga cccctggatt agaaacaatt ttgtgcaagc ccctggtgga gagttcacag
5281 tatcccctag aaacgctcca ggtgaaatac tgtggagtgc gcccttaggc cctgatttaa
5341 atccctactt atcccatttg gccagaatgt acaatggtta tgcaggtggc tttgaagtgc
5401 aggtaatcct cgcggggaac gcgttcaccg ctgggaaggt catatttgca gcagtaccac
5461 caaactttcc aactgaaggc ttgagtccca gccaggttac tatgttcccc catatagtag
5521 tagatgttag gcagcttgaa cctgtgttga ttcctttacc cgatgttagg aataatttct
5581 accattataa tcaatcaaat gatcctacta ttaagctgat agcaatgttg tatacaccac
5641 ttagggctaa taatgctggg gacgatgtct tcacagtctc ttgtcgggtc ctcacgagac
5701 cgtcccccga ttttgacttc atatttctag tgccacccac agttgagtca agaactaagc
5761 cattctctgt cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctc
5821 tggagaagtt gttcacgggt cccagcagtg cctttgttgt tcaaccacaa aacggcaggt
5881 gcacgactga tggcgtgctc ctaggcacca cccaattgtc ccctgtcaac atctgcacct
5941 tcagagggga tgtcacccac atcgcaggta gtcgcaactt cagaatgaat ttggcctctc
6001 aaaattggaa caattatgac ccaacagaag aaatcccagc ccctctagga accccagact
6061 ttgtagggaa gattcaaggt atgctcaccc aaaccacaag ggcagatggc tcaacacgtg
6121 gccacaaagc tacagtgtac actgggagcg ccgactttgc tccaaaacta ggcacagttc
6181 aatttgagac tgacacagac catgattttg aagttaacca aaacacaaag ttcaccccag
6241 tcggtgtcat ccaggacggt agcaccaccc accgaaatga accccaacaa tgggtgctcc
6301 caagttactc aggcaggaat actcataatg tgcacctggc ccccgctgta gcccccactt
6361 ttccgggtga gcaacttctc ttcttcaggt ccaccatgcc cggttgcagc gggtatccca
6421 acatggattt ggattgtctg cttccccagg aatgggtgca gtacttctac caagaggcag
6481 ccccagcaca atctgatgtg gccctgttaa ggtttgtgaa tccagacaca gggagggttt
6541 tgtttgaatg taagctccat aaatcaggct atgttacagt ggctcacact ggccaacatg
6601 atttggtcat tccccctaat ggttatttta ggtttgattc ctgggtcaac cagttctaca
6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgt gttataatgg ctggagcttt
6721 ctttgctgga ttggcttctg atgtcctcgg ctccgggctt ggttccctta tcaatgctgg
6781 cgctggggcc atcaaccaaa aagttgaatt tgaaaacaac agaaaattgc aacaagcatc
6841 cttccaattt agtagtaatt tacaacaggc ttcctttcaa catgataaag aaatgctcca
6901 ggcacaaatt gaggccacca aaaagctaca acaggaaatg atgaaagtta agcaggcagt
6961 gctcctagag ggtggattct ctgagactga tgcggcccgt ggggcaatca acgcccctat
7021 gacaaaaact ctagactgga gcgggacaag gtactgggct cccgatgcta ggactacaac
7081 atacaatgca ggccgctttt ccacccctca accatcggtg gcactgccag gaagagctaa
7141 tcttagggat gctgcccctg ctcggggttc ctctagtaaa tcttctaatt attctactgc
7201 tacttctgtg tactcaaatc aaaccacttc aacgagactt ggttctacag ctggttctgg
7261 caccagtgtc tcgagcttcc cgtcaactgc aaggactagg agctgggttg aggatcaaag
7321 caggaatttg tcacctttta tgaggggggc ccacaacata tcatttgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagagattt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgcc cacattcgta gacgagggga
7501 gtcacgggtg taatgtgaaa agacaaaa
//