Typing tool
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Typing tool
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Complete norovirus genomes
| OR039448 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..4970
ORF2: 4951..6573
ORF3: 6573..7379
LOCUS OR039448 7420 bp RNA linear VRL 29-MAY-2023
DEFINITION Norovirus GII isolate stool nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION OR039448
VERSION OR039448.1
DBLINK BioProject: PRJNA490509
BioSample: SAMN35345295
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7420)
AUTHORS Yang,Z.
TITLE Direct Submission
JOURNAL Submitted (24-MAY-2023) DMB, CFSAN OARSA foodborne pathogen
submission group, 8301 Muirkirk Rd, Laurel, MD 20708, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: CLC GWB v. 10
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7420
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="stool"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA: CA"
/collection_date="Feb-2014"
/note="genotype: GII.4 Sydney_2012[P31]"
gene <1..4970
/gene="ORF1"
CDS <1..4970
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="WHU05298.1"
/translation="KQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDG
VSGLPELTTVRQPEETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVER
GLILGVHKPPAAISLAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNN
CYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTL
SSLFTRPIKDIIGKLKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMI
APLLGDYELQGPEDLAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAY
GLEILKLVMKWFFPKKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMR
TLDLEEEKARKLSTKSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMIS
GRPGIGKTHLARELAKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNP
IHDALRLQELADTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRR
IDFLVYAEAPEVEKAKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKG
VMKTLTTGSLIARASGLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMD
TMRVGKQLKDVKTMSDLKQALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATV
QTNNELAGALHHLRCARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKP
QVEDTEEMANKDGCLKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDE
EYDEYKRIREERNGKYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPT
RKQRKEERASLGLVTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSR
IVNFGSGWGFWVSPSLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRT
DVTGMILEEGAPEGTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTG
SNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEG
GDSKGTYCGAPILGPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSL
QQVMRDQLKPFTEPRGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTT
SSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKV
YGKVKKRLLWGSDLATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHS
RYRYHYDADYSRWDSTQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQ
ISISEGLPSGVPCTSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVST
DIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLE
QSSILRQMYWTRGPNHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAE
LKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..860
/gene="ORF1"
/product="p48"
mat_peptide 861..1958
/gene="ORF1"
/product="NTPase"
mat_peptide 1959..2495
/gene="ORF1"
/product="p22"
mat_peptide 2496..2894
/gene="ORF1"
/product="VPg"
mat_peptide 2895..3437
/gene="ORF1"
/product="Pro"
mat_peptide 3438..4967
/gene="ORF1"
/product="RdRp"
gene 4951..6573
/gene="ORF2"
CDS 4951..6573
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WHU05299.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFGTDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6573..7379
/gene="ORF3"
CDS 6573..7379
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WHU05300.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKRAMLLEGGFSETDAARGAIN
APMTKALDWNGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 ctaaacagcc gcccccgaag gaaataccac ccagaccccc gcgaccaccc acaccagaat
61 tggtcaaaaa gatccctcct cccccaccca acggggagga tgaactagtg gtctcttaca
121 gcgccaaaga tggcgtttcc ggactgcctg agctcaccac tgtcagacaa ccggaagaaa
181 ccaacacggc gttcagtgtc cccccactca accaaaggga gagcagggac gccaaggagc
241 cactaactgg aacaatcatt gaaatgtggg atggagaaat ctaccattac ggcctgtacg
301 tggaacgagg tcttatactt ggtgtgcaca agccaccggc agccattagc cttgccaagg
361 tcgagctagc accgctctct ttgttctgga gacctgtata caccccccag tatctcatct
421 ctccagacac tcttaggaga ttacatggag agtcattccc ctacactgca tttgacaaca
481 attgctacgc cttttgttgt tgggtattag acctaaacga ctcatggcta agcaggagaa
541 tgattcagag aacaacaggc ttcttcaggc cgtaccagga ttggaacagg aaacccctcc
601 ccactatgga tgattccaaa ttaaagaagg tagccaacat attcttgtgc actttgtctt
661 cactattcac cagacccatt aaggacataa tagggaagtt gaaacctctt aacatcctta
721 acattctggc tacatgtgat tggaccttcg caggcatagt ggaatcctta atactcttgg
781 cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatc gcccccttgc
841 taggtgatta tgaactgcaa ggacctgagg accttgcagt ggaactggtc ccaatagtga
901 tgggggggat aggtttggtg ctaggattta ccaaagagaa aatcggaaag atgctatcat
961 ccgctgcatc cactttaaga gcttgtaaag accttggtgc atacggactg gaaatcttaa
1021 aattggtcat gaagtggttc ttcccaaaga aagaggaagc aaatgaactg gctatggtga
1081 gatccatcga ggatgcagta ctagacctcg aggcaattga aaacaaccac atgaccaccc
1141 tactcaaaga caaagacagc ttggcaacct acatgagaac ccttgacctt gaggaggaga
1201 aagccagaaa actctcaacc aaatctgctt cacccgatat tgtgggcaca atcaactctc
1261 ttttggcaag aatcgctgct gcacgctccc tagtgcaccg ggcgaaagaa gagctctcca
1321 gcaggccgag acctgtcgtt gtgatgatat cgggaagacc agggataggg aaaactcacc
1381 ttgccaggga gctggccaag aagatcgcgg cctccctcac aggggaccag cgtgtgggtc
1441 ttatcccacg caatggtgtc gaccactggg acgcatacaa gggcgaaaga gttgtcctat
1501 gggacgacta tggaatgagc aaccccatcc atgatgccct caggttgcag gagcttgctg
1561 acacttgccc cctcacgcta aattgtgaca gaattgagaa caaagggaaa gtctttgaca
1621 gtgatgccat aattatcacc accaatctgg ccaacccagc accactggat tatgtcaact
1681 ttgaagcgtg ctcgagacgc attgatttcc tcgtgtacgc agaagcccct gaggtggaga
1741 aggcaaagcg cgacttccca ggtcaacctg acatgtggaa gaacgctttc agtcctgact
1801 tctcacacat aaaactgtca ttggctccac agggtggttt tgataagaac ggcaacaccc
1861 cgcatggaaa aggggtcatg aagaccctca ccactggctc cctcatcgcc cgagcatcag
1921 ggttactcca tgagaggcta gatgaatatg aactgcaagg cccagccctc accactttca
1981 actttgaccg taacaagata cttgctttta gacagcttgc tgctgaaaac aagtatgggc
2041 tgatggacac aatgagagtt ggaaaacagc tcaaggatgt caagaccatg tcagacctca
2101 aacaagcact caagaacatc gcgatcaaga agtgccagat agtgtacaat ggtggcacct
2161 acacacttga ggctgatggc aagggtagtg tgaaagttga caaagtgcaa agcgccactg
2221 tgcagaccaa caatgaacta gccggtgccc tacaccacct aaggtgcgct agaatcagat
2281 actatgttaa gtgcgtccag gaggcactgt attccatcat ccaaatcgct ggggctgcgt
2341 tcgtcaccac gcgcatcgct aagcgcatga atatacagaa tctctggtcc aagccacagg
2401 tggaagacac agaagagatg gccaacaaag atggttgcct aaaacccaaa gatgatgaag
2461 agtttgtcgt ctcatccgac gacatcaaaa ctgagggcaa gaaagggaag aacaagtccg
2521 gccgtggcaa gaagcacaca gccttttcaa gtaaagggct cagtgatgag gagtacgatg
2581 agtacaagag aatcagagaa gaaaggaatg gtaagtactc catagaagag taccttcagg
2641 acagagacag gtactacgag gaggtggcca ttgccagggc aaccgaagag gacttctgtg
2701 aagaagaaga ggccaaaatc cggcagagaa tcttcagacc aacaaggaaa caacgcaaag
2761 aagagagggc ctctctcggc ttggtcacag gctctgaaat caggaagaga aacccagaag
2821 acttcaaacc caagggaaag ctgtgggctg atgatgacag aagtgttgac tacaatgaga
2881 aactcaactt tgaggcccca ccaagcatct ggtcgcggat agtcaacttt ggttcaggct
2941 ggggcttctg ggtctccccc agtctgttta taacatcaac ccatgtcata ccccaaggtg
3001 caaaagagtt cttcggagtc cctatcaagc aaatccagat acacaagtca ggtgaattct
3061 gccggttgag attcccaaag ccaatcagaa ctgatgtgac gggcatgatt ctagaagaag
3121 gtgcgcccga ggggaccgtg gccacactgc tcatcaagag accaactgga gagctcatgc
3181 ctctggcagc cagaatgggg acccatgcaa ccatgaaaat tcaggggcgc acagttggag
3241 ggcaaatggg tatgctcctg acaggatcca acgccaagag tatggaccta ggcacaacac
3301 caggcgactg cggctgcccc tacatctaca agagggggaa tgactacgtg gtcataggag
3361 tccatacggc cgctgcccgt ggaggaaaca ctgtcatatg tgccacccag gggagtgagg
3421 gagaagccac acttgaagga ggtgacagta aagggacata ctgtggcgca ccaatcttgg
3481 gcccagggag tgctccgaag ctcagcacca agactaagtt ttggagatca tccacaacac
3541 cactcccacc tggcacttac gaaccagcct acctcggtgg caaagaccct agagtcaaag
3601 gtggcccttc attgcaacaa gttatgaggg accagctgaa gccattcaca gaacccagag
3661 gcaaaccacc aagaccaaat gtgttggaag ctgccaagaa aaccatcatc aatgtccttg
3721 agcaaacaat tgatccaccc caaaaatggt catttgcgca agcttgcgca tcccttgaca
3781 aaaccacctc cagcggccac ccgcaccaca tgcggaaaaa cgactgttgg aatggggagt
3841 ccttcacagg aaaattggct gatcaagcct ccaaggccaa cctaatgttt gaagagggaa
3901 agaacatgac tccagtctac acaggtgcac ttaaagatga gttggtaaag accgataaag
3961 tttatggtaa ggtcaagaag aggcttctgt ggggttcaga tctggcgacc atgatacggt
4021 gcgcccgagc ttttggaggc cttatggatg aactcaaggc acactgtgtc acacttcctg
4081 tcagagttgg tatgaacatg aatgaggatg gccccatcat ctttgagaag cactccagat
4141 atagatatca ctatgatgct gattattctc ggtgggactc aacacaacaa agggatgtgc
4201 tagcagcagc actagaaatc atggttaagt tctctccaga accacacctg gcccagatag
4261 ttgcagaaga cctcctttcc cctagcgtga tggatgtagg tgactttcaa atatcaataa
4321 gtgagggtct cccctctggg gtaccttgta cctcccagtg gaattctatc gcccactggc
4381 tcctcactct gtgtgcactc tctgaagtca cggacctgtc ccctgatatc attcaggcca
4441 actccctttt ctccttctat ggtgatgatg agattgtaag cacagacata aaactggacc
4501 cagagaagct gacagcaaag ctcaaggagt acgggctgaa accaacccgc cccgacaaaa
4561 ctgaaggacc ccttgttatc tctgaagacc tggatggcct gacattcctc cggagaactg
4621 tgacccgtga tccagctggc tggtttggaa aattggaaca aagttcaatt ctcaggcaaa
4681 tgtactggac caggggtccc aaccatgaag atccatttga aacaatgata ccacactccc
4741 aaagacccat acaattgatg tccttgctgg gcgaggctgc actccacggc ccggcatttt
4801 atagcaaaat tagcaaacta gtcattgcag agttgaagga aggtggcatg gatttttacg
4861 tacccagaca agagccaatg ttcagatgga tgagattctc agatctgagc acgtgggagg
4921 gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga cgccaaccca
4981 tctgatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggttat ggctctggag
5041 cccgttgttg gtgccgccat tgcggcacct gtagcgggcc aacaaaatgt aattgacccc
5101 tggattagaa ataattttgt acaagcccct ggtggagagt ttacagtgtc ccctagaaac
5161 gctccaggtg aaatactatg gagcgcgccc ttgggccctg atctaaatcc ctacctatcc
5221 catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt aattctcgcg
5281 gggaacgcgt tcaccgccgg gaaggtcata tttgcagcag tcccaccaaa ttttccaact
5341 gaaggcttga gccccagcca ggtcactatg ttcccccata tagtagtaga tgttaggcaa
5401 ttagaacctg tgttgattcc cttacccgat gttaggaata atttctatca ttacaatcaa
5461 tcaaatgacc ccaccattaa gttgatagca atgttgtata caccacttag ggctaataat
5521 gctggggatg atgtcttcac agtttcttgc cgagttctca cgagaccatc ccccgatttt
5581 gatttcatat ttctagtacc acccacagtt gagtcaagaa ctaaaccatt ctctgtccca
5641 gttttaactg ttgaggagat gaccaattca agattcccca ttcctttgga aaagttgttc
5701 acgggtccca gcagtgcctt tgttgtccaa ccacaaaacg gtaggtgcac gactgatggc
5761 gtgctcctag gcaccaccca actgtctcct gtcaacatct gcaccttcag aggagatgtc
5821 acccatatca caggtagtcg taactacaca atgaatttgg cttctcaaaa ttggagcaat
5881 tatgacccaa cagaagaaat cccagcccct ctaggaactc cagattttgt ggggaagatt
5941 caaggcgtgc tcacccaaac cacaaggaca gatggctcaa cacgcggcca caaagccaca
6001 gtgtacactg ggagcgccga ctttgctcca aaactgggta gagttcaatt tggaactgac
6061 acagaccatg attttgaagc taaccaaaac acaaaattca ccccagttgg tgtcatccaa
6121 gatggtagca ccacccaccg aaatgaaccc caacagtggg tgctcccaag ttactcaggc
6181 agaaatactc ctaatgtgca tctggccccc gctgtagccc ccacttttcc gggtgagcaa
6241 cttctcttct tcagatccac catgcccgga tgcagcgggt accccaacat ggatttggac
6301 tgtctgctcc cccaggaatg ggtgcagtac ttctaccaag aggcagcccc agcacaatct
6361 gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt tgagtgtaag
6421 cttcataaat caggctatgt tacagtggct cacactggcc aacatgattt ggttatcccc
6481 cccaatggtt attttaggtt tgattcctgg gtcaaccagt tttacacgct tgcccccatg
6541 ggaaatggaa cggggcgtag acgtgcacta taatggctgg agctttcttt gctggattgg
6601 catctgatgt ccttggctct ggacttggtt cccttatcaa tgctggggct ggggccatca
6661 accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc caatttagca
6721 gcaatctaca acaggcttcc tttcaacatg acaaagagat gctccaagca caaattgagg
6781 ccaccaaaag gctacaacag gaaatgatga aagttaagcg ggcaatgctc ctagagggtg
6841 ggttctctga gacagatgca gcccgcgggg caatcaacgc ccccatgaca aaagctttgg
6901 actggaacgg gacaaggtac tgggctcccg atgctaggac tacaacatac aatgcaggcc
6961 gcttttccac ccctcaacca tcgggggcac tgccaggaag agctaatctt agggatgctg
7021 tccctgctcg gggttcctcc agtaagtctt ctaattcttc tactgctact tctgtgtact
7081 caaatcaaac tacttcaacg agacttggtt ctacagctgg ttctggtacc agtgtctcga
7141 gcttcccgtc aactgcaagg actaggagct gggttgagga tcaaagtagg aatttgtcac
7201 ctttcatgag gggggcccac aacatatcgt ttgtcacccc accatctagc agatcctcta
7261 gccaaggcac agtctcaacc gtgcctaaag agattttgga ctcctggact ggcgctttca
7321 acacgcgcag gcagccactc ttcgcccaca ttcgtaagcg aggggagtca cgggcgtaat
7381 gtgaaaagac aaaattgatt atctttcttt ttctttagtg
//