Typing tool
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Typing tool
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Complete norovirus genomes
| PQ213805 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5022
ORF2: 5003..6625
ORF3: 6625..7431
LOCUS PQ213805 7447 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P31]/Wilson0053/2012/USA
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION PQ213805
VERSION PQ213805.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7447)
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JOURNAL Unpublished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 7447)
AUTHORS Dill,J., 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 :: 454; Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7447
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.4 Sydney[P31]/Wilson0053/2012/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="15-Nov-2012"
/note="genotype: GII.4 Sydney[P31]"
gene <1..5022
/gene="ORF1"
CDS <1..5022
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEQ87063.1"
/translation="DGVFSNMAVTFKRALGARPKQPPPKEIPPRPPRPPTPELVKKIP
PPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNTAFSVPPLNQRESRDAKEPLTG
TIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVELTPLSLFWRPVYTPQYLISP
DTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPL
PTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILNILATCDWTFAGIVESLI
LLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMGGIGLVLGFTKEKIG
KMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIEDAVLDLEAIE
NNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINSLLARIAAARSLV
HRAKEELSSRPRPVVVMISGKPGIGKTHLARELAKKIAASLSGDQRVGLIPRNGVDHW
DAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDAIIITT
NLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKDAFSPDFSHIKL
SLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEYELQGPALTTFNFDR
NKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMPDLKQALKNIAIKKCQIVYNGSTYT
LEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIRYYVKCVQEALYSIIQIAGAA
FVTTRIAKRMNIQNLWSKPQVEDTEEVANKDGCLKPKDDEEFVVSSDDIKTEGKKGKN
KSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEEVAIARATE
EDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPEDFKPKGKLWADDDR
SVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAKEFFGVPIKQI
QIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPTGELMPLAARMGTHA
TMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARG
GNTVICATQGSEGEATLEGGDKGTYCGAPILGPGSAPKLSTKTKFWRSSTTPLPPGTY
EPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNVLEAAKKTIINVLEQTID
PPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEEGKNM
TPVYTGALKDELVKTDKVYGKIKKRLLWGSDLATMIRCARAFGGLMDELKAHCVTLPV
RVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAALEIMVKFSPEPHLAQ
IVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLLTLCALSEVTDLSPDI
IQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLT
FLRRTVTRDPAGWFGKLEQSSILRQLYWTRGPNHEDPFETMIPHSQRPIQLMSLLGEA
ALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVN
EDGVE"
mat_peptide <1..915
/gene="ORF1"
/product="p48"
mat_peptide 916..2013
/gene="ORF1"
/product="NTPase"
mat_peptide 2014..2550
/gene="ORF1"
/product="p22"
mat_peptide 2551..2949
/gene="ORF1"
/product="VPg"
mat_peptide 2950..3492
/gene="ORF1"
/product="Pro"
mat_peptide 3493..5019
/gene="ORF1"
/product="RdRp"
gene 5003..6625
/gene="ORF2"
CDS 5003..6625
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XEQ87064.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTYNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6625..7431
/gene="ORF3"
CDS 6625..7431
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XEQ87065.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gacggtgtgt tttctaacat ggctgtcact tttaaacggg ccctcggggc gcggcctaaa
61 cagccgcccc cgaaggaaat accacccaga cccccgcgac cacccacacc agaattggtc
121 aaaaagatcc ctcctccccc acccaacggg gaggatgaac tagtggtctc ctacagcgcc
181 aaagacggcg tttccggact gcctgagctc accactgtca gacaaccgga agaaaccaac
241 acggcgttca gtgtcccccc actcaaccaa agggagagca gggacgccaa ggagccacta
301 actggaacaa ttattgaaat gtgggatgga gaaatctacc attacggcct gtacgtggaa
361 cgaggtctta tacttggtgt gcacaagcca ccggcagcca tcagccttgc caaggttgag
421 ctaacaccgc tctctttgtt ctggagacct gtatacaccc cccagtatct catctctcca
481 gacactctta ggagactaca tggagagtca ttcccctaca ctgcatttga caacaattgc
541 tacgcctttt gttgttgggt attagaccta aacgactcat ggctaagcag gagaatgatt
601 cagagaacaa caggtttctt caggccgtac caggattgga acaggaaacc cctccccact
661 atggatgatt ccaaattaaa gaaggtagcc aacatattct tgtgcacttt gtcttcacta
721 ttcaccagac ccattaagga cataataggg aagttgaaac ctcttaacat ccttaacatt
781 ctggctacat gtgattggac cttcgcaggc atagtggaat ccttaatact cttggcagaa
841 ctctttggag ttttctggac acccccagat gtgtctgcga tgatcgcccc cttgctaggt
901 gattatgaac tgcaaggacc tgaggacctt gcagtggaac tggtcccaat agtgatgggg
961 gggataggtt tggtgctagg atttaccaaa gagaaaattg gaaaaatgct gtcatccgct
1021 gcatccactt taagagcttg taaagacctt ggtgcatacg ggctggaaat cttaaagctg
1081 gtcatgaagt ggttcttccc aaagaaagag gaagcaaatg aactggctat ggtgaggtcc
1141 atcgaggatg cagtgctaga cctcgaggca attgaaaaca accacatgac caccctactc
1201 aaagacaaag acagcttggc aacctacatg agaacccttg accttgagga ggagaaagcc
1261 agaaaactct caaccaaatc tgcttcaccc gatattgtgg gcacaatcaa ctctcttctg
1321 gcaagaatcg ctgctgcacg ctccctagtg catcgggcga aagaagagct ctccagcagg
1381 ccgagacctg tcgttgtgat gatatcggga aaaccaggga tagggaaaac tcaccttgcc
1441 agggagctgg ccaagaagat cgcggcctcc ctctcagggg accagcgtgt gggtcttatc
1501 ccgcgcaatg gtgtcgacca ctgggacgca tacaagggtg aaagagttgt cctatgggac
1561 gattatggaa tgagcaaccc catccatgat gccctcaggt tgcaggagct tgctgacact
1621 tgccccctca cgctaaattg tgatagaatt gagaacaaag ggaaagtctt tgacagtgat
1681 gccataatta tcaccaccaa tctggccaac ccagcaccac tggattatgt caactttgaa
1741 gcgtgctcga gacgcattga tttcctcgtg tacgcagaag cccctgaggt ggagaaggca
1801 aagcgcgact tcccaggtca acctgacatg tggaaggacg ctttcagccc tgacttctca
1861 cacataaaac tgtcattggc tccacagggt ggttttgaca agaatggcaa caccccgcat
1921 ggaaaagggg tcatgaagac cctcaccacc ggctccctca tcgcccgagc atcagggtta
1981 ctccatgaga ggctagatga gtatgaactg caaggcccag ccctcaccac tttcaacttt
2041 gaccgcaaca agatacttgc ttttagacag cttgctgctg aaaacaagta tgggctgatg
2101 gacacaatga gagttgggaa acagctcaag gatgtcaaga ccatgccaga cctcaaacaa
2161 gcactcaaga atatcgcgat caagaagtgc cagatagtgt acaatggtag cacctacaca
2221 cttgaggccg atggcaaggg tagtgtgaaa gttgacaaag tgcaaagcgc cactgtgcag
2281 accaacaatg aactagccgg tgccctacac cacctaaggt gcgctagaat cagatactat
2341 gttaagtgcg tccaggaagc actgtattcc atcatccaaa tcgctggggc cgcattcgtc
2401 accacgcgca tcgctaagcg catgaatata cagaatctct ggtccaagcc acaggtggaa
2461 gacacagaag aggtggccaa caaagatggt tgcctaaaac ccaaagatga tgaagagttt
2521 gtcgtctcat ccgacgacat caaaactgag ggtaagaaag ggaagaacaa gtccggccgt
2581 ggtaagaagc acacagcctt ttcaagcaaa gggctcagtg atgaggagta cgatgagtac
2641 aagagaatca gagaggaaag gaatggtaag tattccatag aagagtacct tcaggacaga
2701 gacaggtact acgaggaggt ggccattgcc agggcaaccg aagaggactt ctgtgaagaa
2761 gaagaggcca aaatccggca gagaattttc agaccaacaa ggaaacaacg caaagaagag
2821 agggcctctc tcggcttggt cacaggctct gaaatcagga agagaaaccc agaagacttc
2881 aaacccaagg gaaagctgtg ggctgatgat gacagaagtg ttgactacaa tgagaaactc
2941 aactttgagg ccccaccaag catctggtcg cggatagtca actttggttc aggttggggc
3001 ttctgggtct cccccagtct gtttataaca tcaacccatg tcatacccca aggtgcaaag
3061 gaattcttcg gagtccctat caagcagatc cagatacaca aatcaggtga attctgccga
3121 ttgagattcc caaaaccaat cagaactgat gtgacgggca tgatcctaga agaaggtgcg
3181 cccgaaggga ccgtggccac actgctcatc aagagaccaa ctggagagct catgcctctg
3241 gcagccagga tggggactca tgcaaccatg aaaattcagg ggcgcacagt tggagggcaa
3301 atgggtatgc tcctgacagg atccaacgcc aagagtatgg acctaggcac aacaccaggc
3361 gactgcggct gcccctacat ctacaagagg gggaatgact acgtggtcat aggagtccat
3421 acggccgctg cccgtggagg aaacactgtc atatgtgcca ctcaggggag tgagggagaa
3481 gccacacttg aaggaggtga taaagggaca tactgtggtg caccaatctt gggcccaggg
3541 agcgctccga agctcagtac caagactaag ttttggagat catccacaac accactccca
3601 cctggcacct acgaaccagc ctacctcggt ggcaaagacc ccagagtcaa aggtggccct
3661 tcattgcaac aagttatgag ggaccagcta aagccattca cagagcccag aggcaaacca
3721 ccaagaccaa acgtgctgga agccgccaag aaaaccatca tcaatgtcct tgagcagaca
3781 attgatccac cccaaaaatg gtcattcgcg caagcttgcg catcccttga caaaaccacc
3841 tccagcggcc acccgcacca catgcggaaa aacgattgtt ggaatgggga gtccttcaca
3901 ggaaaattgg ctgatcaggc ctccaaggcc aacctaatgt ttgaagaggg aaagaacatg
3961 actccagtct acacaggtgc acttaaagat gagttggtaa agaccgataa agtttatggt
4021 aagatcaaga agaggcttct gtggggttca gatctggcga ccatgatacg gtgcgcccga
4081 gcttttggag gccttatgga tgaactcaag gcacactgtg tcacacttcc tgtcagagtt
4141 ggtatgaaca tgaatgagga tggccccatc atctttgaga agcactccag atatagatat
4201 cactatgatg ctgattattc ccggtgggac tcaacacaac aaagggatgt gctagcagca
4261 gcactagaaa tcatggttaa gttctctcca gaaccacatc tggcccagat agttgcagaa
4321 gacctccttt cccctagcgt aatggatgta ggtgactttc aaatatcaat aagtgagggt
4381 ctcccctctg gggtaccttg cacctcccag tggaattcca tcgcccactg gctcctcact
4441 ctttgtgcac tctctgaagt cacggacctg tcccctgaca tcattcaggc caactccctt
4501 ttctccttct atggtgatga tgagattgta agcacagaca taaagttgga tccagagaag
4561 ctgacagcaa aactcaagga gtacgggctg aaaccaaccc gccccgataa aactgaagga
4621 ccccttgtta tctctgaaga cctggatggc ctgacattcc tccggagaac tgtgacccgt
4681 gatccagctg gctggtttgg aaaattggaa caaagttcaa ttctcaggca actgtactgg
4741 accaggggtc ccaaccatga agatccattt gaaacaatga taccacactc ccaaagaccc
4801 atacaattga tgtccttgct gggcgaggct gcactccacg gcccggcgtt ttatagcaaa
4861 attagcaagt tagtcattgc agagttgaag gaaggtggca tggattttta cgtgcccagg
4921 caagagccaa tgttcagatg gatgagattc tcagatctga gcacgtggga gggcgatcgc
4981 aatctggctc ccagttttgt gaatgaagat ggcgtcgagt gacgccaacc catctgatgg
5041 gtccgcagcc aacctcgtac cagaggtcaa caatgaggtt atggctctgg agcccgttgt
5101 tggtgccgct attgcggcac ctgtagcggg ccaacaaaat gtaattgacc cctggattag
5161 aaacaatttt gtacaagccc ctggtggaga gtttacagta tcccctagaa atgctccagg
5221 tgaaatacta tggagcgcgc ccttaggccc tgatctaaat ccctacctat cccatttggc
5281 cagaatgtac aatggttatg caggtggttt tgaagtgcag gtaattctcg cggggaacgc
5341 gttcaccgcc gggaagatca tatttgcagc agtcccacca aattttccaa ctgaaggctt
5401 aagccccagc caggtcacta tgttccccca tataatagta gatgtcagac aactagaacc
5461 tgtgctgatt cccttacccg atgtcaggaa caatttctat cattataatc aatcaaatga
5521 ctccactatt aagttgatag caatgttgta tacaccactt agggctaata atgctgggga
5581 cgatgtcttc acagtttctt gccgagttct cacgagacca tcccccgatt ttgatttcat
5641 atttttagtg ccacccacag ttgagtcaag aactaaacca ttctctgtcc cagttttaac
5701 tgttgaggag atgaccaatt caagatttcc cattcctttg gaaaagttgt tcacgggccc
5761 cagcagtgcc tttgttgttc aaccacaaaa cggcaggtgc acgactgatg gcgtgctcct
5821 aggcaccacc caactgtctc ctgtcaacat ctgcaccttc agaggggatg tcacccacat
5881 cacaggtagt cgtaactaca caatgaattt ggcttctcaa aattggaaca attatgaccc
5941 aacagaagaa atcccagccc ctctaggaac tccagatttt gtggggaaga ttcaaggcat
6001 gctcacccaa accacaagga cagatggttc aacacgcggc cacaaagcta cagtgtacac
6061 tgggagcgcc gactttgctc caaaactggg tagagttcaa tttgaaactg acacagacca
6121 tgattttgaa gctaatcaaa acacaaagtt caccccagtc ggtgtcatcc aagatggtag
6181 caccacccac cgaaatgagc cccaacagtg ggtgctccca agttactcag gcagaaacac
6241 ttataatgtg catctggccc ccgctgtagc ccccactttt ccgggcgagc aacttctctt
6301 cttcagatcc accatgcccg gatgcagcgg gtaccccaac atggatttgg actgtctgct
6361 cccccaggaa tgggtgcagc acttctacca agaggcagcc ccagcacaat ctgatgtggc
6421 tctgctaaga tttgtgaatc cagacacagg tagggttttg tttgagtgta agctccataa
6481 atcaggctat gttacagtgg ctcacactgg ccaacatgat ttggttatcc cccccaatgg
6541 ttactttagg tttgattcct gggtcaacca gttctacacg cttgccccca tgggaaatgg
6601 aacggggcgt agacgtgtag tataatggct ggagctttct ttgctggatt ggcatctgat
6661 gtccttggct ctggacttgg ttcccttatc aatgctgggg ctggggccat caaccaaaaa
6721 gttgagtttg aaaataacag aaaattgcaa caagcatcct tccaatttag cagcaatctg
6781 caacaggctt cctttcaaca tgacaaggag atgctccaag cacaaattga ggccaccaaa
6841 aagctacaac aggaaatgat gaaagttaag caggcaatgc tcctagaggg tgggttctct
6901 gagacagatg cagcccgcgg ggcaatcaac gcccccatga caaaagcttt ggactggagc
6961 gggacaaggt actgggctcc cgatgctagg actacaacat acaatgcagg ccgcttttcc
7021 acccctcaac catcgggggc actgccagga agagctaatc ttagggatgc tgtccctgct
7081 cggggtccct ccagcaaatc ttctaactct tctactgcta cttctgtgta ttcaaatcaa
7141 actacttcaa cgagacttgg ttctacagct ggttctggaa ccagtgtctc gagcctcccg
7201 tcaactgcaa ggactaggag ctgggttgag gatcaaagta ggaatttgtc acctttcatg
7261 aggggggccc acaacatatc gtttgtcacc ccaccatcta gcagatcctc tagccaaggc
7321 acagtctcaa ccgtgcctaa agagattttg gactcctgga ctggcgcttt caacacgcgc
7381 aggcagcctc tcttcgctca cattcgtaag cgaggggagt cacgggtgta atgtgaaaag
7441 acagaat
//