Typing tool
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Typing tool
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Complete norovirus genomes
| PQ213436 | GII.4 Den Haag | |
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| GII.P4 Den Haag |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS PQ213436 7559 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 New
Orleans[P4]/AnneArundel0444/2012/USA, complete genome.
ACCESSION PQ213436
VERSION PQ213436.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7559)
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JOURNAL Unpublished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 7559)
AUTHORS Moore,T., 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..7559
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.4 New
Orleans[P4]/AnneArundel0444/2012/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="03-Feb-2012"
/note="genotype: GII.4 New Orleans[P4]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEQ86854.1"
/translation="MKMASNDASAAAVANSNDDTAKSSSDKMFSNMAVTLKRALGARP
KQPPPREISQRPPRPPTPELVKKIPPPPPNGEDEVVVSYSVKDGVSGLPELSTVRQPE
ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVEQGFVLGVHKPPAAIS
LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGK
LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED
LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTM
PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATSKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLPDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVAGMILEEGAPEG
TVVSLLIKRSTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE
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="XEQ86855.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSTFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFSPKLGRVQFATDTDNDFEANQNTKFTPVGVIQDG
NTAHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6707..7513
/gene="ORF3"
CDS 6707..7513
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XEQ86856.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQSQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQPSGAPPGRANLRAAAPARGSSSTSS
NSSIATSVYSNQTTSTRLGSTAGSGTSVSSLPSSARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgctaaca gcaacgacga
61 caccgcaaaa tcttcaagtg acaaaatgtt ttctaacatg gctgtcactc ttaaacgagc
121 cctcggggcg cggcctaaac agcccccccc gagggaaata tcacaaagac ccccacgacc
181 acccactcca gaactggtca aaaagatccc tcctcccccg cccaacggag aggatgaagt
241 agtggtttct tatagtgtca aagatggcgt ttccggtttg cctgagcttt ccaccgtcag
301 gcaaccagaa gaaaccaaca cggccttcag tgttcctcca ctcaaccaga gggagaatag
361 ggatgctaag gaaccattaa ctgggacgat tctggaaatg tgggatggag aaatctacca
421 ttatggcctg tatgttgagc aaggttttgt gctgggcgtg cacaagccac cagctgccat
481 tagtctcgcc aaggtcgaat taacaccact ctccttgttc tggagacctg tgtacactcc
541 tcagtacctc atttctccag acaccctcaa gaaattacac ggagaaacat ttccctacac
601 agcctttgac aacaattgct atgccttttg ctgctgggtc ctggatttga acgactcgtg
661 gctgagtagg agaatgatcc agagaacaac aggcttcttc agaccctacc aagattggaa
721 taggaaaccc ctccccacta tggatgattc caaattaaag aaggtggcta acatattcct
781 gtgcgccctg tcttcgctat tcaccaggcc cataaaagac ataataggaa agttaaggcc
841 tcttaacatc atcaacatcc tggcttcatg tgattggact ttcgcaggca tagtggagtc
901 cttgatactc ttggcggagc tctttggagt cttctggaca cccccagatg tgtctgcgat
961 gatcgccccc ttactcggtg atttcgagtt acaaggacct gaggaccttg tagtggagct
1021 cgtccctgtg gtaatggggg ggattggttt ggtgctagga ttcaccaaag agaagattgg
1081 gaaaatgttg tcatctgctg catccacctt gagagcttgc aaagaccttg gtgcatatgg
1141 actagagatc ttaaagttgg tcatgaagtg gttcttcccg aagaaagagg aagcgaatga
1201 actggccatg gtgagatcca tcgaggatgc agtactggac cttgaggcaa ttgaaaacaa
1261 ccatatgacc accttgctca aagacaaaga tagcctggca acctacatga gaaccctcga
1321 cctcgaggaa gagaaagcca gaaaactctc aaccaagtct gcttcacctg acatcgtggg
1381 cacaatcaac gcacttctgg cgagaatcgc cgctgcacgc tccctggtgc accgagcaaa
1441 ggaggagctt tccagcagac caagacctgt agtcttgatg atatcaggca ggccaggaat
1501 agggaagacc caccttgcta gggaagtggc taagagaatc gcagcctccc tcacaggaga
1561 ccagcgtgta ggcctcatcc cgcgcaatgg cgtcgatcac tgggatgcgt acaaggggga
1621 aagggtcgtc ctatgggacg actatggaat gagcaacccc atccacgacg ccctcaggct
1681 gcaagaactc gctgacactt gccccctcac tctaaattgt gacaggattg agaataaagg
1741 aaaggtcttt gacagcgatg tcatcattat cactactaat ctggccaacc cagcaccatt
1801 ggactatgtc aactttgagg catgctcgag acgcatcgat ttcctcgtgt acgcagaagc
1861 ccccgaggtc gaaaaggcga agcgcgactt cccgggccaa cctgacatgt ggaaaaacgc
1921 ttttagttct gatttctcac acataaaatt ggcactggct ccacaaggtg gctttgataa
1981 gaacgggaac accccgcacg ggaagggcgt catgaagact ctcaccactg gctccctcat
2041 tgcccgggca tcagggctgc tccatgagag gttggatgag ttcgaactac agggcccaac
2101 tcttaccacc ttcaactttg accgcaacaa agtgcttgcc ttcaggcagc ttgctgctga
2161 aaacaaatat ggattgatgg acacaatgaa agttgggagg cagctcaagg atgtcaaaac
2221 catgccagaa cttaagcaag cactcaagaa tatctcaatc aagaagtgcc agattgtgta
2281 cagtggttgc acctacacac ttgagtctga tggcaagggc aacgtgaaag ttgacagagt
2341 acagagtacc tccgttcaga ccaacaatga gctggctggc gccctgcacc atctaaggtg
2401 cgccagaatc aggtattatg ttaagtgtgt tcaggaagcc ctgtattcta tcatccagat
2461 tgctggggct gcatttgtca ccacgcgcat catcaagcgt gtgaacattc aagacttatg
2521 gtccaagcca caagtggaaa acacagagga ggctaccagc aaggacgggt gcccaaaacc
2581 caaagatgat gaggagttcg tcatttcatc cgacgacatt aaaactgagg gtaagaaagg
2641 gaagaacaag actggccgtg gcaagaagca cacagccttc tcaagtaaag gtctcagtga
2701 tgaagagtat gatgaataca agagaattag agaggaaaga aatggcaagt actccataga
2761 agagtaccta ccagacaggg acaaatacta tgaggaggtg gccattgcca gggcgaccga
2821 ggaagacttc tgtgaagagg aggaggctaa gatccggcaa aggatcttta gaccaacaag
2881 gaaacaacgc aaggaagaaa gagcttctct cggtttagtc acaggttctg aaattaggaa
2941 aagaaatcca gaagacttca agcccaaggg gaaactatgg gctgacgatg acagaagtgt
3001 ggactataat gaaaaactca gttttgaggc cccaccaagc atctggtcaa ggatagtcaa
3061 ctttggctca ggttggggct tctgggtctc ccccagcctg ttcataacat caacccacgt
3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaattc aggtgcacaa
3181 gtcaggcgaa ttctgtcgct tgaggttccc aaagccaatt aggaccgatg tggctggcat
3241 gatcttggaa gaaggtgcgc ccgagggcac cgtggtctca ctactcatca aaaggtctac
3301 tggagaactc atgcccctag cagctagaat gggaacccac gcaaccatga ggattcaagg
3361 acgcactgtt ggaggtcaga tgggcatgct tctgacagga tccaacgcca aaagcatgga
3421 tctaggcacc acaccaggcg attgtggctg tccctacatc tacaagagag gaaacgacta
3481 tgtggtcatt ggagtccaca cggctgccgc tcgtggggga aacactgtca tatgtgccac
3541 ccaggggggt gagggggaag ctacacttga aggtggtgac agtaagggaa catactgtgg
3601 tgcaccaatc ctaggcccag ggagtgcccc aaaactcagc accaaaacca aattctggag
3661 atcatccaca gcaccactcc cacctggcac ctatgaacca gcctaccttg gtggcaaaga
3721 ccccagagtc aagggtggcc cctcgctgca gcaagtcatg agggaccagc taaaaccatt
3781 tacggagcct aggggtaagc caccaaaacc aagtgtgtta gaagctgcca agaaaaccat
3841 catcaatgtc cttgagcaga caattgaccc acctgagaag tggtcgttcg cacaagcttg
3901 cgcgtccctt gataagacca cttctagcgg ccacccacac cacatgcgga aaaatgactg
3961 ctggaacggg gagtccttca caggcaagct ggcagaccag gcttccaaag ccaacctgat
4021 gtttgaagaa gggaagaaca tgaccccagt ctacacaggt gcacttaagg atgaattagt
4081 caaaactgac aaaatttatg gtaagatcaa gaagaggctt ctctggggct cggacctggc
4141 aaccatgatc cggtgtgctc gagcattcgg aggtctgatg gatgagctca aagcacactg
4201 tgtcacactt cctgtcaggg ttggtatgaa tatgaatgag gatggcccca tcatcttcga
4261 gaagcattcc aggtacagat accattatga tgctgattac tctcggtggg attcaacaca
4321 acagagagcc gtgctggcag ctgccctaga aatcatggtt aaattctcct cagaaccaca
4381 tttggctcag gtagtagcag aagaccttct ttctcctagc gtagtggatg tgggtgactt
4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc
4501 catcgcccac tggcttctca ctctttgtgc gctctccgaa gtcacaaatt tgtctccaga
4561 catcatacag gctaattctc tcttttcctt ctatggtgat gatgaaattg ttagcacaga
4621 cataaaatta gacccagaaa aattgacagc aaagctcaag gaatatgggt tgaaaccaac
4681 ccgccctgac aaaactgaag ggccccttgt tatttctgaa gacttagacg gtttgacttt
4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagctc
4801 aatactcagg caaatgtact ggaccagggg ccccaatcat gaagacccat ctgaatcaat
4861 gatcccacac tctcaaagac ccatacaatt gatgtcctta ctgggtgagg ccgcactcca
4921 cggcccaaca ttctacagca aaatcagcaa attagtcatt gcagagctaa aagaaggtgg
4981 catggatttt tacgtgccca ggcaagagcc aatgttcaga tggatgagat tctcggacct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 atgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtt gttggtgccg ctattgcggc gcctgtggcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtgga gagttcacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttaggc cccgatctaa
5341 atccctacct atctcatttg gccagaatgt ataatggtta tgcaggtggt tttgaagtgc
5401 aggtgatcct cgcggggaac gcgttcaccg ccggaaaaat tatatttgca gcagtcccac
5461 caaattttcc aactgaaggt ttgagtccca gccaggttac tatgttcccc cacataatag
5521 tagatgttag gcaattggaa cccgtgttga tccccttacc tgatgttaga aataacttct
5581 atcattataa tcagtcaaat gactctacca ttaaattgat agcaatgctg tacacaccac
5641 ttagggctaa taatgctggg gatgacgtct ttacagtttc ttgtcgagtt ctcacgagac
5701 catcccccga ttttgatttc atatttttag tgccacctac agttgaatca agaactaaac
5761 cattctctgt cccaatttta actgttgaag aaatgaccaa ttcaaggttc cccattcctt
5821 tggaaaagtt gttcacgggc cccagtagta cctttgttgt tcaaccacaa aacggcaggt
5881 gcacgactga tggcgtgctc ctaggtacta cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac attgcaggca gtcgtaacta cacaatgaat ctggcttccc
6001 aaaattggaa cagttatgac ccaacagaag aaatcccagc ccctctagga actccagatt
6061 tcgtggggaa gattcaaggt gtgctcaccc aaaccacaag gacagatggc tcgacccgcg
6121 gtcacaaagc tacagtatac actgggagcg ccgacttttc tccaaaactg ggtagagttc
6181 aatttgccac tgacacagac aatgatttcg aagctaacca aaacacaaag ttcaccccag
6241 tcggtgttat ccaggatggt aataccgccc accgaaatga accccaacaa tgggtgctcc
6301 caagctactc aggcagaaac acccataatg tgcacctggc ccccgctgta gcccccactt
6361 ttccgggtga gcaactcctc ttcttcagat ctaccatgcc cggatgcagc gggtacccca
6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtatttctac caggaagcag
6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggtcc
6541 tgtttgagtg taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg
6601 atttggttat cccccccaat ggttatttta gatttgattc ctgggtcaac cagttctaca
6661 cacttgcccc catgggaaat gggacggggc gtaggcgtgc attataatgg ctggagcttt
6721 ctttgctgga ttggcatctg acgtccttgg ctctggactt ggttccctaa tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgaatt tgaaaataac agaaaactgc aacaggcttc
6841 cttccaattt agtagcaacc tacaacaagc ttcctttcaa catgataaag agatgctcca
6901 atcacaaatt gaggccacca aaaagttgca acaggaaatg atgagagtta aacaagcaat
6961 gctcctagag ggtggattct ctgagacaga tgcagctcgt ggggcaatca acgcccccat
7021 gacaaaagtt ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac
7081 atataatgca ggtcgctttt ccacccccca accctcgggg gcaccaccag gaagagctaa
7141 tcttagggcc gctgcccccg cccggggttc ctccagcaca tcttctaact cttctattgc
7201 tacttctgtg tattcaaatc aaaccacttc aacgagactt ggttctacag ctggttctgg
7261 taccagtgtc tcgagcctcc cgtcatctgc aaggactagg agctgggttg aggatcaaaa
7321 taggaatttg tcacctttca tgaggggggc ccacaacatc tcgtttgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgccc aaagaagttt tggactcctg
7441 gactggcgct ttcaatacgc gcaggcagcc tctcttcgct cacatccgta agcgagggga
7501 gtcacgggtg taatgtgaaa agacaaaatt gattatcttt cttttcttta gtgtctttt
//