Typing tool
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Typing tool
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Complete norovirus genomes
| OR700747 | GII.4 | |
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| GII.P4 New Orleans |
ORF1: 1..4938
ORF2: 4919..6541
ORF3: 6541..7350
LOCUS OR700747 7350 bp RNA linear VRL 24-OCT-2023
DEFINITION Norovirus GII isolate Hu/US/2022/GII.4[P4 New Orleans]/CA-RGDS-1185
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION OR700747
VERSION OR700747.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7350)
AUTHORS Pan,C.-Y., Hatada,A., Padilla,T., Wright,C. and Morales,C.
TITLE Direct Submission
JOURNAL Submitted (19-OCT-2023) Viral and Rickettsial Disease Laboratory,
California Department of Public Health, 850 Marina Bay Parkway,
Richmond, CA 94804, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious Prime v. 2022.0.2; SPAdes v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7350
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/US/2022/GII.4[P4 New Orleans]/CA-RGDS-1185"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA: CA"
/collection_date="Jun-2022"
/note="genotype: GII.4[P4 New Orleans]"
gene <1..4938
/gene="ORF1"
CDS <1..4938
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WOE95005.1"
/translation="KPPRPPTPELVKCIPPPPPNGEDEVVVSYSVKDGVSGLPDLTTV
RQPEESNTAFSVPPLNLRENKDAKEPLTGTILEMWDGEIYHYGLYVDRGLVLGVHKPP
AAVSLAKIELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLD
LNDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKD
IIGKIRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQ
GPEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMK
WFFPTKEEKNELAMVRAIEDAVLDLEAIENNHLTTLLKDKDSLATYMRTLDLEEEKAR
KLSTKSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHL
AREVAKKIASSLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQEL
ADTCPLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAP
EVEKAKRDFPGQPDMWKNAFSPDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSL
IARASGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLVDTMKVGKQLKD
VKTMPELKQALKNVSIKKCQIVYSGNTYILESDGKGNVKVDKVQSAAVQINNELAGAL
HHLRSARIRYYVKCVQEALYSIIQIAGAAFVTTRITKRMNIQNLWSKPQAEDTEETAS
KDGCPKPKDDEEFVVSSNDIKAEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIRE
ERNGKYSIEEYLQDRDKYCEELAIARATEEDFCEEEEARIRQRIFRPTRKQRKEERAS
LGLVTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGF
WVSPSLFITTTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEG
APEGTVVSLLIKRPTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGT
TPGDCGCPYIYKRGNDYVAIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGA
PILGPGNAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKP
FTEPRGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFTQACASLDKTTSSGHPHHVRK
NDYWNGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGRIKKRLLW
GSDLATMVRCARAFGGLMDELKAHCITLPIRVGMNMNEDGPIIFEKHSRYAYHYDADY
SRWDSTQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSG
VPCTSQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLT
AKLREYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYW
TRGPNHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYV
PRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..828
/gene="ORF1"
/product="p48"
mat_peptide 829..1926
/gene="ORF1"
/product="NTPase"
mat_peptide 1927..2463
/gene="ORF1"
/product="p22"
mat_peptide 2464..2862
/gene="ORF1"
/product="VPg"
mat_peptide 2863..3405
/gene="ORF1"
/product="Pro"
mat_peptide 3406..4935
/gene="ORF1"
/product="RdRp"
gene 4919..6541
/gene="ORF2"
CDS 4919..6541
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WOE95006.1"
/translation="MKMASSDASPSNGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLKKLYTGPSSAFFVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHISGSRNWVMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTKSNGSTRGHTATVLTGSADFSPKLGRIQFATDTDHDFETNQNTKFTPVGVIQDG
DTTHRNEPQQWVLPSYSGRGTNNVHLAPAVAPTFPGEQLLFFRSTLPGCSGYPNTDLD
CLLPQEWVQYFYQEAAPAQSDLALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6541..7350
/gene="ORF3"
CDS 6541..7350
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WOE95007.1"
/translation="MAGALFAGIASDVLGSGLSSLINAGAGAINQKIDFDNNRKLQEA
SFQYSSTLQQASFKHDQDMLQAQIEATKKLQQEMMRVKQSMLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWAPEARTTTYNAGRFSTPQPSGAPSGRANLKAATPVRGSSSNTS
SISSIATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRSLSPFMRGAHN
ISFVTPPSSRSSSQGTVSTVPKEILDSWTSAFNTHRQPLFAHIRKRGESRV"
ORIGIN
1 aaacccccac gaccacccac gccagaattg gtcaaatgta tccctcctcc cccacccaac
61 ggggaggatg aagtagtggt ttcctacagt gtcaaagatg gtgtttctgg tttgcctgac
121 cttaccaccg tcaggcaacc ggaagagtct aacacggcct ttagtgtccc tccactcaac
181 ctgagggaga acaaagatgc caaggagcca cttactggga cgattctgga aatgtgggac
241 ggggaaatct accattatgg cctatatgtg gaccgaggcc tcgtactagg tgtgcacaaa
301 ccaccagctg ccgttagcct cgctaagatt gagctagcac cactctcctt gtactggaga
361 cctgtgtaca cccctcagta cctcatctca ccggacactc tcaaaaagtt gtccggagag
421 acgtttccct atacagcctt tgacaacaac tgttatgcct tttgctgctg ggtcctggac
481 ctaaatgact cgtggctgag caggagaatg atccagagaa caactggttt cttcaggccc
541 taccaagatt ggaataggaa accccttccc accatggacg actccaaaat aaagaaggta
601 gccaacattt tcctgtgtgc tctgtcctca ctgttcacca gacccataaa ggatataata
661 gggaagataa ggccacttaa catcctcaac atcttagcct catgtgattg gacttttgca
721 ggcatagtag agtccctgat tctcttggca gaactctttg gagttttctg gacgccccca
781 gatgtgtctg cgatgattgc ccccttactc ggtgactacg agctgcaagg acctgaagac
841 cttgcggtgg agcttgtccc cgtggtgatg ggggggattg gtttggtgct aggattcacc
901 aaagagaaga ttgggaaaat gttgtcatca gctgcatcta cattgagagc ttgtaaagac
961 cttggcgcat atgggctgga gatcctaaag ttggtcatga agtggttctt cccaacgaag
1021 gaggagaaaa acgaactggc tatggtgagg gctatcgagg atgcagtcct agacctcgag
1081 gcaattgaaa acaaccactt gaccaccttg ctcaaagaca aagacagtct ggcaacctac
1141 atgagaacac ttgaccttga ggaggagaaa gccaggaaac tctcaaccaa gtctgcctcg
1201 cctgatatcg tgggcacaat caacgccctc ttggcgagaa tcgccgccgc acgctccctg
1261 gtgcatcgag cgaaggagga gctttccagc agaccaaggc ctgtagtgtt gatgatatca
1321 ggtagaccgg gaatagggaa gacccacctc gctagggaag tggctaagaa aatcgcgtcc
1381 tccctcacag gggaccagcg tgtgggcctc atcccacgca atggtgtcga ccattgggat
1441 gcgtacaagg gggagagggt cgtcctatgg gacgattatg gaatgagcaa ccccatccac
1501 gacgccctca ggctgcaaga acttgctgac acctgccccc tcacactaaa ctgtgacagg
1561 attgagaaca aaggaaaggt ctttgacagt gatgtcatta tcatcaccac caatctggcc
1621 aacccagcac cactggacta tgtcaacttt gaagcatgct cgagacgcat cgacttcctc
1681 gtgtatgcag aagcccctga agtcgaaaag gcgaagcgtg acttcccagg ccaacctgac
1741 atgtggaaga acgccttcag tcctgatttc tcacatataa aactagcact ggccccacag
1801 ggcggtttcg acaagaacgg gaacacccca cacgggaagg gcgtcatgaa gactcttacc
1861 actggctccc ttattgcccg ggcatcaggg ctactccatg agaggttaga tgaatttgaa
1921 ctacagggcc cagctctcac caccttcaac ttcgaccgca acaaggtgct tgccttcaga
1981 cagcttgctg cagaaaacaa atatggattg gtggacacaa tgaaagttgg gaaacaactc
2041 aaggatgtca aaaccatgcc agaacttaaa caagcactca agaatgtctc aatcaagaaa
2101 tgccaaatag tgtatagtgg taacacctac atacttgagt ctgatggcaa gggcaatgtg
2161 aaagttgaca aagtccaaag cgccgctgta caaatcaaca atgagttggc cggtgccctg
2221 catcacttga ggagcgccag aatcaggtac tatgtcaaat gtgtccagga ggccctgtac
2281 tccatcattc aaattgctgg agctgcattt gtcaccacgc gcattaccaa gcgcatgaac
2341 atacaaaacc tatggtccaa accacaagcg gaagacacag aggagactgc cagcaaggac
2401 gggtgcccaa aacctaagga tgatgaggag tttgtcgttt catccaacga tatcaaggct
2461 gagggcaaga aggggaagaa caagactggc cgtggcaaga aacacacagc attctcaagc
2521 aaaggtctca gtgatgaaga gtacgatgag tacaagagga tcagagaaga aaggaatggc
2581 aagtactcca tagaagagta ccttcaggac agagacaaat actgtgagga attggccatt
2641 gccagggcga ctgaggaaga cttctgtgaa gaggaggagg ccaggatccg gcaaaggatc
2701 tttagaccaa caaggaaaca acgcaaggag gaaagagctt ctctcggtct ggtcacaggc
2761 tctgaaatta gaaagaggaa ccctgaagac ttcaaaccca aggggaaact gtgggctgat
2821 gatgacagga gtgtggacta caatgaaaag ctcagctttg aggccccacc aagcatctgg
2881 tcaagaatag tcaactttgg ttcaggttgg ggattctggg tctcccccag cctgttcata
2941 acaacaactc atgtcatacc ccagggtgca aaagagttct ttggagtccc catcaaacaa
3001 atacagatac acaaatcagg cgagttctgt cgcttgagat tcccaaaacc aattaggact
3061 gatgtgacgg gcatgatctt agaagaagga gctcctgagg gcaccgtggt ctcactgctc
3121 atcaagaggc ccactggaga actcatgccc ctagcagtta ggatggggac ccacgcgacc
3181 atgaagattc aagggcgcac cgttggaggc cagatgggca tgctcctaac aggatccaac
3241 gccaaaagca tggacctggg taccacacca ggtgattgtg gctgtcccta catctacaag
3301 agaggtaatg actatgtggc cattggagtc cacacggctg ccgcacgagg gggaaacacc
3361 gtcatatgtg ccacccaggg gagtgaagga gaggccacac ttgaaggtgg tgacaacaaa
3421 gggacatact gtggtgcacc aatcttgggc ccagggaatg ctccaacact tagcactaaa
3481 accaaattct ggagatcatc cacagcatca ctaccacctg gcacatatga accagcatac
3541 cttggtggca aggaccccag agtcaagggt ggcccttcac tacagcaggt catgagagag
3601 cagttgaaac cattcacaga gccaagaggc aagccaccaa aaccaagtgt attagaagct
3661 gccaagaaga ccatcatcaa tgtccttgag caaacaattg atccacctga gaaatggtcg
3721 ttcacacaag cctgcgcgtc cctcgacaag accacttcca gtggtcatcc gcaccacgtg
3781 cggaagaacg actactggaa cggggagtcc ttcacaggca agctagcaga ccaagcatcc
3841 aaggccaatc ttatgtttga agaagggaag aacatgaccc cagtctatac agctgcactc
3901 aaggatgagt tggttaaaac tgacaaaatc tatggtagga tcaagaagag gctgctctgg
3961 ggttcggacc tggcaaccat ggtccggtgc gctcgagcat tcgggggctt aatggatgaa
4021 ctcaaagcac actgcatcac gctccctatc agagttggta tgaacatgaa cgaggatggt
4081 cccatcatct tcgagaaaca ttccaggtac gcataccatt atgatgctga ttactctcga
4141 tgggattcaa cacaacagag ggccgtgttg gcagcagctc tagaaatcat ggtcaaattc
4201 tcctcagaac cacatctggc ccaagtagtt gcagaagacc tcctttcccc tagtgtggtg
4261 gacgtgggcg atttcacaat atcaatcaac gagggtcttc cctctggggt gccctgcacc
4321 tcccaatgga actccatcgc ccactggcta ctcactctct gcgcactctc tgaagtcacg
4381 aacctgtccc ctgacaccat acaggctaac tccctcttct ctttctatgg tgatgatgaa
4441 attgtcagca cagacataaa attggacccg gagaaattga cagcaaaact cagagagtat
4501 gggttaaaac caacccgccc tgacaaaact gaaggacccc ttgtcatttc tgaagacctg
4561 aatggcctaa ccttcctgcg gagaactgtg acccgcgacc cagctggttg gtttggaaaa
4621 ctggagcaga gttcaatact caggcaaatg tactggacta ggggtcctaa ccatggagac
4681 ccatctgaaa caatgattcc acactcccaa agacccatac aattgatgtc cctactgggt
4741 gaggccgctc ttcacggccc agccttctat agcaaaatca gtaaattggt cattgcagag
4801 ctaaaagaag gtggcatgga tttttacgtg cccagacaag agccaatgtt cagatggatg
4861 agattctcag atctgagcac gtgggagggc gatcgcaatc tggctcccag ttttgtgaat
4921 gaagatggcg tcgagtgacg ccagcccatc taatgggtcc gcagccaacc tcgtcccaga
4981 ggtcaacaat gaggttatgg ctttggagcc cgtagttggt gccgctattg cggcacccgt
5041 tgcgggccaa caaaatgtaa ttgacccctg gattagaaat aattttgtac aagcccctgg
5101 tggagaattt acagtttccc ctagaaacgc tccaggagaa atactatgga gcgcgccttt
5161 aggccctgat ctgaatccct atctttccca tttggccaga atgtacaatg gttatgcagg
5221 tggttttgaa gtgcaggtaa tcctcgcggg gaatgcgttc accgcaggga aaatcatatt
5281 tgcagcagtc ccaccaaatt ttccaactga aggtttgagc cccagccagg tcactatgtt
5341 tccccatata atagtagatg ttaggcaatt ggaacccgtg ttaatccctt tacccgatgt
5401 taggaacaat ttctaccatt ataaccaatc aaatgattct actattaaat tgatagcaat
5461 gttatacaca ccacttaggg ctaacaatgc tggggacgat gtcttcacag tctcttgccg
5521 ggttctcacg agaccgtccc ccgattttga tttcatcttt ttagtgccac ccacagttga
5581 atcaagaact aaaccattct ctgtcccaat cttaaccgtt gaggagatga ctaattcaag
5641 gttccccatt cctttgaaaa aactgtacac aggccccagc agtgccttct ttgttcaacc
5701 acaaaacggc aggtgcacga ccgatggcgt gctcctaggt acaacccaac tgtcccctgt
5761 caacatctgc accttcagag gggatgtcac ccacatctca ggtagccgca attgggtaat
5821 gaatttggcc tcccaaaatt ggaacaatta tgatccaaca gaagaaattc cagctccttt
5881 aggaactcca gatttcgtag ggaaaattca aggtgtgctc acccaaacca caaagtcaaa
5941 tggctcaacc cgcggtcaca ctgccacagt gctcactggg agcgccgact tttctccaaa
6001 actgggtaga attcaatttg ccactgacac agaccatgac tttgaaacta accaaaacac
6061 aaagttcacc ccagtcggcg tcatccagga cggtgatacc acccaccgaa atgaacccca
6121 acaatgggta ctcccaagtt attcaggcag aggcactaac aatgtacatc ttgcccccgc
6181 tgtagccccg accttcccgg gcgagcagct tctcttcttc aggtccacct tgcccggatg
6241 cagcgggtac cccaacacgg atttggactg tctactcccc caagaatggg tgcagtactt
6301 ctatcaagag gcagccccag cacaatctga tttggctttg ttaagatttg tgaatccaga
6361 tacaggtagg gttttgtttg agtgtaagct ccacaagtca ggctatgtca cagtggctca
6421 cactggccaa catgatttgg ttatcccccc caatggttac tttagatttg actcctgggt
6481 caaccagttc tacacacttg cccccatggg aaatgggacg gggcgtagac gtgcattata
6541 atggctggag ctctctttgc tggaatagca tctgacgtcc ttggctccgg acttagttcc
6601 ctaatcaatg ctggagcagg agccatcaac cagaagattg attttgacaa caacagaaaa
6661 ttacaagaag cctccttcca atatagtagc actctacaac aggcctcctt caaacatgat
6721 caggacatgc tccaagcaca aattgaggcc accaaaaagt tgcagcagga aatgatgaga
6781 gttaaacagt caatgctcct ggagggtgga ttttctgaga ctgatgcagc ccgtggggca
6841 attaacgccc ccatgacaaa agttttggac tggagcggaa caagatactg ggctcccgaa
6901 gctaggacta caacatacaa tgcaggccgc ttttccaccc cccaaccctc gggggcacca
6961 tcaggaagag ctaatcttaa ggctgccacc cccgttcggg gttcttcttc taatacttct
7021 tctatctctt ctattgctac ttctgtgtat tcaaatcaaa ccacatcaac gagacttggt
7081 tctacagctg gttctgggac cagtgtctcg agcctcccgt caactgcgag gactaggagt
7141 tgggttgagg atcaaaacag gagtttgtca cctttcatga gaggggccca caacatctcg
7201 tttgtcaccc caccatctag cagatcctct agccaaggca cagtctcaac cgtgcctaaa
7261 gaaattttgg actcctggac tagtgctttc aacacgcaca ggcagcccct cttcgctcac
7321 attcgtaagc gaggggagtc acgggtgtaa
//