Typing tool
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Typing tool
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Complete norovirus genomes
| OR700741 | GII.4 Wichita | |
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| GII.P4 New Orleans |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7512
LOCUS OR700741 7512 bp RNA linear VRL 24-OCT-2023
DEFINITION Norovirus GII isolate Hu/US/2023/GII.4[P4]/CA-RGDS-11182
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION OR700741
VERSION OR700741.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7512)
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..7512
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/US/2023/GII.4[P4]/CA-RGDS-11182"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA: CA"
/collection_date="Apr-2023"
/note="genotype: GII.4[P4]"
gene 1..5100
/gene="ORF1"
CDS 1..5100
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WOE94996.1"
/translation="MKMASNDASAAAVANSNNDIAKSSSDGVLSSMAVTFKRALGAKP
KQPPPREKQQKPPRPSTPELVKCIPPPPPNGEDEVVVSYSVKDGVSGLPDLTTVRQPE
ESNTAFSVPPLNLRENKDAKEPLTGTILEMWDGEIYHYGLYVDRGLVLGVHKPPAAIS
LAKIELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLNRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGIFWTPPDVSAMIAPLLGDYELQGPED
IAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEKNELAMVRAIEDAVLDLEAIENNHLTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIASSLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTM
SELKQALKNVSIKKCQIVYSGNTYILESDGKGNVKVDKVQSAAVQINNELAGALHHLR
SARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQLEDTEETASKDGC
PKPKDDEEFVVSSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEELAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGVKEFFGVSIKQIQIHKSGEFCRLRFPRPIRTDVTGMILEEGAPEG
TVASLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGNAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHVRKNDYW
NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMVRCARAFGGLMDELKAHCITLPIRVGMNMNEDGPIIFEKHSRYAYHYDADYSRWD
STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLVVSEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHGDPSKTMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 1..990
/gene="ORF1"
/product="p48"
mat_peptide 991..2088
/gene="ORF1"
/product="NTPase"
mat_peptide 2089..2625
/gene="ORF1"
/product="p22"
mat_peptide 2626..3024
/gene="ORF1"
/product="VPg"
mat_peptide 3025..3567
/gene="ORF1"
/product="Pro"
mat_peptide 3568..5097
/gene="ORF1"
/product="RdRp"
gene 5081..6703
/gene="ORF2"
CDS 5081..6703
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WOE94997.1"
/translation="MKMASSDASPSNGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLYTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGSVTHISGSRNWTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRSNGSTRGHTATVLTGSADFSPKLGRVQFATDTDNDFETNQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRGTNNVHLAPAVAPTFPGEQLLFFRSTLPGCSGYPNLDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6703..7512
/gene="ORF3"
CDS 6703..7512
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WOE94998.1"
/translation="MAGALFAGMASDVLGSGLSSLINAGAGAINQKIDFDNNRKLQEA
SFQFSSNLQQASFKHDQDMLQAQIEATKKLQQEMMRVKQSMLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWAPEARTTTYNAGRFSTPQSSGAPSGRANLRAATPARGSSSNTP
SISSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHN
ISFVTPPSSRSSSQGTVSTVPKEILDSWTSAFNTHRQPLFAHIRKRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgctgttg ctaacagcaa caacgacatc
61 gcaaaatctt caagtgacgg agtgctttct agcatggctg tcacttttaa acgagccctc
121 ggggcgaagc ctaaacagcc tcccccgagg gaaaaacaac aaaaaccccc acgaccatcc
181 actccagaac tggtcaaatg tattccccct cccccaccca acggggagga tgaagtggtg
241 gtctcttaca gtgttaaaga tggtgtttct ggtctgcctg accttaccac cgttaggcag
301 ccagaagaat ctaacacggc ctttagtgtc cctccactca acctaaggga gaacaaagat
361 gccaaggagc cacttactgg aacaattctg gaaatgtggg acggggaaat ttaccattat
421 ggcctgtatg tggaccgagg tctcgtacta ggtgtacaca aaccaccagc tgccattagc
481 ctcgccaaga ttgagctagc accactttcc ttgtactgga gacctgtgta cactcctcag
541 tacctcatct caccggacac tctcaagaag ctgtccggag agacgttccc ctacacagcc
601 tttgacaaca actgttatgc cttttgctgc tgggtcctgg acctaaatga ctcatggctg
661 aacaggagaa tgatccagag aacaaccggt ttcttcagac cctaccaaga ctggaatagg
721 aaaccccttc ccaccatgga tgactccaaa ataaagaagg tagctaacat tttcctgtgt
781 gctctgtcct cactgttcac cagacccata aaggacataa tagggaagat aaggccactc
841 aacatcctca acatcctggc ctcatgtgat tggacttttg caggcatagt agagtccctg
901 atactcttgg cagaactctt tgggattttc tggacacccc cagatgtgtc tgcgatgatt
961 gcccccttac tcggtgatta cgagctgcaa ggacctgaag acattgcagt agagcttgtc
1021 cccgtggtga tgggggggat tggtttggtg ctaggattca ccaaagagaa gattgggaaa
1081 atgttatcat ctgctgcatc cacattaaga gcttgtaaag accttggtgc atatgggctg
1141 gagatcctaa agctggttat gaaatggttc ttcccgaaga aggaggagaa aaatgagctg
1201 gctatggtga gggctatcga ggatgcagtc ctggacctcg aggcaattga aaacaaccat
1261 ttgaccacct tgcttaagga caaagacagt ctggcaacct atatgaggac ccttgacctt
1321 gaggaggaga aagccaggaa actttcaacc aagtctgctt cacctgacat cgtgggcaca
1381 atcaacgccc tcctggcgag aatcgccgcc gcacgctctc tggtacaccg agcgaaggag
1441 gagctctcca gcagaccaag acctgtggtg ttgatgatct caggcaggcc gggaatagga
1501 aagacccatc tcgccaggga agtggctaag agaatcgcat cctccctcac aggggaccag
1561 cgtgtgggcc tcattccacg caacggcgtc gaccactggg atgcgtacaa aggggagagg
1621 gtcgtcctat gggacgacta tggaatgagc aaccctattc acgacgccct caggttgcaa
1681 gaactcgccg acacctgtcc cctcacccta aattgtgaca ggattgaaaa caaagggaag
1741 gtctttgaca gcgatgtcat cattatcacc accaacctgg ccaacccagc accactggac
1801 tatgtcaact ttgaagcatg ttcgaggcgc atcgacttcc tcgtgtatgc agaagcccct
1861 gaggtcgaaa aggcgaagcg tgacttccca ggccagcctg acatgtggaa gaacgctttc
1921 agtcctgatt tctcacacat aaagctaaca ttggccccac agggtggttt cgacaaaaac
1981 gggaacaccc cacacggaaa gggcgtcatg aagactctca ccactggttc cctcattgcc
2041 cgggcatcag ggttactcca tgagagatta gacgaatttg aactacaggg cccagctctc
2101 accaccttca atttcgatcg caataaggtg cttgccttca gacagcttgc tgcagaaaac
2161 aagtatggat tgatggacac aatgagggtc gggaaacaac tcaaggatgt caaaaccatg
2221 tcagaactca aacaagcact caagaatgtc tcaatcaaga agtgccaaat agtgtatagt
2281 ggtaacacct acatacttga gtctgatggc aagggcaacg tgaaagttga caaagtccaa
2341 agcgccgctg tgcagatcaa caatgagctg gccggcgccc tgcaccactt gaggagcgcc
2401 agaatcaggt actatgtcaa gtgtgtccag gaggccctgt attccatcat tcaaattgct
2461 ggagctgcat tcgtcaccac gcgcattgcc aaacgcatga acatacaaaa cctatggtcc
2521 aaaccacaat tggaagacac agaggaaact gccagcaagg acgggtgccc aaaacccaag
2581 gatgatgagg agtttgtcgt ttcatccgac gacatcaaaa ctgagggcaa gaaggggaag
2641 aataagactg gccgtggcaa gaaacacaca gcattttcaa gcaaaggtct cagtgatgaa
2701 gagtacgatg agtacaagag gatcagggaa gaaaggaatg gcaagtactc catagaagag
2761 taccttcagg acagggacaa atactatgaa gaattggcca ttgccagggc gactgaggaa
2821 gacttctgcg aagaagagga ggccaagatc cggcaaagga tcttcaggcc aacaaggaaa
2881 caacgcaagg aggaaagagc ttctctcggc ctggtcacag gctctgaaat tagaaagagg
2941 aacccagaag acttcaagcc caagggtaaa ctgtgggctg acgacgacag gagtgtggac
3001 tacaatgaaa agctcagctt tgaggcccca ccaagcatct ggtcaagaat agtcaatttt
3061 ggttcaggtt ggggattctg ggtctcccct agtctgttta taacatcaac ccatgtcata
3121 ccccagggtg taaaagaatt ctttggagtc tccatcaaac aaatacagat acacaaatca
3181 ggcgagttct gccgcttgag gttcccaaga ccaatcagga ctgatgtgac gggcatgatc
3241 ttagaagaag gagcacctga gggcaccgtg gcctcattac tcatcaaaag acccactggg
3301 gaactcatgc ccctagcagc taggatgggg acccacgcca ccatgaagat tcaagggcgc
3361 accgttggag gccagatggg catgctacta acaggatcca acgccaagag catggatctg
3421 ggtaccacac caggtgattg tggctgcccc tacatctaca agagaggtaa tgactatgtg
3481 gtcattggag tccacacggc tgccgcacga gggggaaaca ccgtcatatg tgccacccag
3541 gggagtgaag gagaggctac gcttgagggt ggtgacaaca agggtacata ctgtggtgca
3601 ccaatcttag gcccagggaa tgctccaaca ctcagcacta agaccaaatt ctggagatca
3661 tccacagcat cgctgccacc tggtacatat gaaccagcct accttggtgg caaagacccc
3721 agagtcaagg gtggcccttc attgcagcaa gtcatgagag aacaattgaa accatttaca
3781 gagccaagag gcaagccacc aaaaccaagt gtattagaag ctgccaagaa gaccatcatc
3841 aatgtccttg aacaaacaat tgacccacct gagaaatggt cgttcgcaca agcctgtgcg
3901 tcccttgaca agaccacctc cagtggtcat ccgcatcacg tgcggaaaaa cgactactgg
3961 aacggggagt ccttcacagg taaattagca gaccaagctt ccaaggccaa tctaatgttt
4021 gaagaaggga agaacatgac cccagtctat acagctgcac tcaaagatga attggttaaa
4081 actgacaaaa tctatggcaa gatcaagaag aggctactct ggggttcgga cctggcaacc
4141 atggtccgat gtgctcgagc attcgggggc ttaatggatg aactcaaggc acactgtatc
4201 acgctcccta tcagagttgg tatgaacatg aacgaggatg gccccatcat cttcgagaaa
4261 cattccaggt acgcatacca ctatgatgct gattactccc gatgggactc aacacaacag
4321 agagccgtgt tggcagcagc tctagaaatc atggtcaaat tttcctcaga accacatcta
4381 gctcaagtag ttgcagagga tctcctttct cctagtgtag tggacgtggg cgatttcaca
4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaattccatc
4501 gcccactggc tgctcactct ctgtgcactc tctgaagtca caaacctgtc ccctgacacc
4561 atacaggcca actccctctt ctctttctat ggtgatgatg aaattgttag cacagacata
4621 aaattggacc cagagaaact gacagcaaaa ctcagagagt atgggttaaa accaacccgc
4681 cctgataaaa ctgaaggacc ccttgtcgtt tctgaagacc tgaatggcct gacattcctg
4741 cggagaactg tgacccgcga cccagctggt tggtttggaa aactggaaca aagttcaata
4801 ctcaggcaaa tgtactggac taggggcccc aaccatggag acccatctaa aacaatgatc
4861 ccacactccc aaaggcccat acaactgatg tccctactgg gggaggccgc tcttcacggc
4921 ccagcctttt acagcaaaat cagtaaattg gtcattgcag agctaaaaga aggtggcatg
4981 gatttttacg tgcccagaca agaaccgatg ttcagatgga tgagattctc agatctgagc
5041 acgtgggagg gcgatcgcaa tctggctccc aattttgtga atgaagatgg cgtcgagtga
5101 cgccagccca tctaatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggttat
5161 ggctttggag cccgtagttg gtgccgctat tgcggcaccc gttgcgggcc aacaaaatgt
5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggagaat tcacagtgtc
5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ttaggccctg atctgaatcc
5341 ctatctttcc catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt
5401 aatcctcgca gggaatgcgt tcaccgcagg gaaaatcata tttgcagcag tcccaccaaa
5461 ttttccaact gaaggcttga gccccagcca agtcactatg tttccccata taatagtaga
5521 tgttagacaa ttggaacccg tgttgatccc cttacccgat gttaggaaca atttctacca
5581 ctataaccaa tcaaatgatt ctaccattaa attgatagca atgttgtaca caccacttag
5641 ggctaacaat gccggggacg acgtcttcac agtctcttgc cgggttctca cgagaccgtc
5701 ccccgatttt gatttcatct ttctagtgcc gcccacagtt gaatcaagaa ctaagccatt
5761 ctctgtccca gtcttaaccg ttgaggagat gactaattca aggttcccca ttcctctgga
5821 aaagctgtac acaggtccca gcagtgcctt tgttgttcaa ccacaaaacg gcaggtgcac
5881 gactgatggc gtgctcctag gtacaaccca actgtcccct gttaacatct gcaccttcag
5941 ggggagtgtc acccacatct caggtagccg caattggaca atgaatttgg cctcccaaaa
6001 ttggaacaat tatgatccaa cagaagaaat cccagcccct ttaggaactc cagatttcgt
6061 agggaaaatt caaggtgtgc tcacccaaac cacaaggtca aatggttcaa cccgtggtca
6121 cactgccaca gtgctcactg ggagcgccga cttttctcca aaactgggta gagttcaatt
6181 tgccactgac acagataatg actttgaaac taaccaaaac acaaagttca ccccagttgg
6241 cgtcatccag gacggtagca ccacccaccg aaatgaaccc caacaatggg tactcccaag
6301 ttattcaggc agaggcacta acaatgtaca tcttgccccc gctgtagccc ccaccttccc
6361 gggcgagcag ctcctcttct tcaggtctac cttgcccgga tgcagcgggt atcccaactt
6421 ggatttggac tgcctactcc cccaagaatg ggtgcagtac ttctaccagg aggcagcccc
6481 agcacaatct gatgtggctt tgttaagatt tgtgaatcca gatacaggta gggttttgtt
6541 tgagtgtaag ctccataaat caggctatgt cacagtggct cacactggtc aacatgattt
6601 ggtcatcccc cccaatggtt actttagatt tgattcctgg gtcaaccagt tctacacact
6661 tgcccccatg ggaaatggaa cggggcgtag acgtgcatta taatggctgg agctctcttt
6721 gctggaatgg catctgatgt ccttggctcc ggactcagtt ccctaatcaa tgctggagca
6781 ggagccatca accaaaagat tgattttgac aacaacagaa aattacaaga agcctccttc
6841 caatttagta gcaatttaca acaggcctcc ttcaaacatg atcaggacat gctccaagca
6901 caaattgagg ccaccaaaaa gttgcaacag gaaatgatga gagttaaaca atcaatgctc
6961 ctagagggtg gattttctga gacagatgca gcccgtgggg caatcaacgc ccccatgaca
7021 aaggtcttgg actggagcgg aacaagatac tgggcccctg aagctaggac tacaacatac
7081 aatgcaggcc gcttttccac cccccaatcc tcgggggcac catcaggaag agctaatctt
7141 agggctgcca cccccgctcg gggttcttct tctaatactc cttctatctc ttctactgct
7201 acttctgtgt attcaaatca aaccacatca acgagacttg gttctacagc tggttctggg
7261 accagtgtct cgagcctccc gtcaactgca aggactagga gttgggttga ggatcaaaac
7321 aggaatttgt cacctttcat gagaggggcc cacaacatct cgtttgtcac cccaccatca
7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagaaatttt ggactcctgg
7441 actagtgctt tcaacacgca caggcagcct ctcttcgctc acattcgtaa gcgaggggag
7501 tcacgggtgt aa
//