Typing tool
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Typing tool
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Complete norovirus genomes
| MT238666 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5092
ORF2: 5073..6695
ORF3: 6695..7501
LOCUS MT238666 7501 bp RNA linear VRL 01-MAY-2020
DEFINITION Norovirus GII isolate 526-1 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MT238666
VERSION MT238666.1
DBLINK BioProject: PRJNA604000
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7501)
AUTHORS Yang,Z., Williams-Hill,D., Wolfe,J., Silva,A.J., Hirneisen,K.,
Ruelle,S., Kulka,M. and Hellberg,R.
TITLE Direct Submission
JOURNAL Submitted (24-MAR-2020) Molecular Virology Team/Devision of
Molecular Biology, OARSA/CFSAN/FDA, 8301 Muirkirk Rd., Laurel, MD
20708, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: CLC Genomics Workbench v. 11
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7501
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="526-1"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="08-Jan-2016"
/note="genotype: GII.P16-GII.4"
gene <1..5092
/gene="ORF1"
CDS <1..5092
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="QIQ09385.1"
/translation="ASNDATVAVACNNNNDKEKSSGEGLFINMSSTLKKALGARPKQP
APRDEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPDV
ANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISM
ARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSW
LSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKI
KPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGEYELQGPEDL
AVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPK
KEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTK
SASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVA
RKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCP
LTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKA
KRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARAS
GLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTME
ELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKH
ARIRYYVKCVQEAIYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPK
SEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS
IEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGS
EIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLF
ITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVA
TVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGC
PYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGG
APKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGK
PPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFWNGE
TFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTM
IRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQ
QRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQW
NSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYG
LKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHE
DPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMF
RWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide <1..988
/gene="ORF1"
/product="p48"
mat_peptide 989..2086
/gene="ORF1"
/product="NTPase"
mat_peptide 2087..2617
/gene="ORF1"
/product="p22"
mat_peptide 2618..3016
/gene="ORF1"
/product="VPg"
mat_peptide 3017..3559
/gene="ORF1"
/product="Pro"
mat_peptide 3560..5089
/gene="ORF1"
/product="RdRp"
gene 5073..6695
/gene="ORF2"
CDS 5073..6695
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QIQ09386.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPIAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6695..7501
/gene="ORF3"
CDS 6695..7501
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QIQ09387.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAVLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS
NSSTVTSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 ggcgtctaac gacgctaccg ttgccgttgc ttgcaacaac aacaacgaca aggaaaaatc
61 ttcaggtgaa ggcttattca taaatatgtc ttccacctta aagaaagccc tcggggctag
121 gcccaaacag cccgccccga gagacgaacc acaaaagccc ccaagaccac caactcccga
181 gttggtcaag aggatacccc ctcctccacc taatggcgaa gaagaagaag aaccagtcat
241 taggtatgag gttaagagtg ggatctctgg cctgcccgag ctcacaacag tcccccaacc
301 ggacgtggcc aacacagcat tcagtgttcc accactgagc ttgagagaaa acagggaggc
361 caaggaaccg ctaacagggg caatattaga gatgtgggat ggagagatat accactatgg
421 cctgtacgtg gagaaaggct tagtgttggg tgtgcacaaa ccacctgcag ccataagcat
481 ggcaagagtg gagctgacgc cgctgtcatt gtactggcgt gtggtgtaca ctccccaata
541 cctcatctcc cctgaaactc tcaggaggct caacggagag gcgttccctt acaccgcctt
601 cgacaacaac tgctatgcct tttgctgctg ggtgttagac ctcaatgact catggcttag
661 caggaggatg gtgcaaagaa caacgggctt cttcagacct taccaagagt ggaacagaaa
721 acccctgcct accatggatg actccaaaat taagaaggta gcaaatatat tcctatgttc
781 attgtccacg ttattcacca gacccataaa agacctcata ggaaaaatta aaccattaaa
841 catattgaac atcctggcaa cgtgtgactg gacgtttgcc ggaatagtgg aatctctgat
901 attacttgct gaactcttcg gagttttctg gacaccccca gatgtgtctg ctatgatcgc
961 tcccttactc ggggaatacg agttgcaagg gccagaagac ctcgccgttg aactcgtacc
1021 tgtggtaatg ggagggattg gtttggtgtt gggattcacc aaagagaaaa ttggcaaaat
1081 gttgtcctca gcagcatcaa cactcagggc ttgcaaagat cttggtgcct atggcttaga
1141 gatactcaaa ttggtcatga agtggttctt cccaaagaaa gaggaggcca atgagctagc
1201 catggtgagg gccatagagg atgccgtatt agatcttgag gcaatagaaa ataaccacat
1261 gacaaccctg ttgaaagaca aagacagctt agcaacatac atgaaaacac tggacatgga
1321 ggaggagaaa gccagaaggt tgtccacaaa atctgcatcc cctgacatag ttgggacaat
1381 caacgccctg ctggctcgaa tagcagcggc caggtcatta gtccacaggg ccaaggaaga
1441 gctatctagc aggataagac cagtagttgt tatgatatct ggcaaaccag gaataggcaa
1501 aactcatctg gccagggagg tggcaagaaa ggtggcatcc actctcacag gggatcaaag
1561 agtcggactc ataccaagaa acggtgtgga ccattgggat gcatacaaag gtgagagagt
1621 cgtgctgtgg gacgactatg gcatgagtaa ccccattcat gatgctcttc gcatacaaga
1681 attggctgat acgtgtcccc ttaccttaaa ttgtgacaga attgaaaata agggaaaagt
1741 ttttgacagt gaagtcataa taattacaac aaaccttgcc aatccagccc cacttgatta
1801 tgtcaacttt gaggcctgtt ccaggagaat tgatttcctg gtgtacgctg aggcaccaga
1861 agtagaaaag gcaaaacggg actttcctgg tcagccagat atgtggaagg acgccttcaa
1921 gccggacttt tcacacatca agctacagct tgcacctcag ggcggctttg acaagaatgg
1981 caacacccca catgggaaag gagtgatgaa gaccctcact accggttctc tgattgcccg
2041 tgcatcaggc ctactgcatg agaggatgga tgaatttgaa ctccaaggtc ccacaatcac
2101 caccttcaat ttcgaccgga acagaatcac agcattcaga caattggctg cagaaaacaa
2161 gtatggattg gtggatacca tgaaagttgg caatcaacta aaaggagtga aaaccatgga
2221 agaactcaaa caagcaatca ggaatgtgac catcaagagg tgccggatca tctacggtgg
2281 ctccacgtac gaccttgaat ctgatggcaa gggcaaagtt ttggtggaaa aggtcaagaa
2341 cacctctgta cagaccaaca acgagttggc cggggccctg caccatctca aacacgcccg
2401 aatcaggtac tatgtcaaat gtgtgcaaga agcaatctac tccatcatac aaattgccgg
2461 cgctgcgttt gtcaccacgc gcattgcacg ccgcatgaac atacaagaac tctggtcgaa
2521 gccacaatta gatcaaaatg aatcagagac taaggaagag gcccccaagt cagaagacga
2581 cgagttcatc atatcttcta aggacatcaa ggaggaagga aagaagggca aaaacaaaac
2641 tggccgtggc aagaaacaca ctgcattctc cagcaagggt ttgagcgatg aggagtatga
2701 cgagtacaag aggataagag aagagagaaa tgggaagtac tctatagagg agtatcttca
2761 agatagagac aggtactatg aggagctcgc cattgccaag gccacagaag aagacttctg
2821 tgaagaggag gagatcaaaa tccgtcagag aattttccgt cccaccagga aacaaagaaa
2881 ggaagagagg gccacattag ggctagtaac aggttcagaa atcagaaaaa gaaaccctga
2941 tgacttcaaa cccaaaggga agctgtgggc cgatgacaac agaagtgttg actacaatga
3001 gaaactggac tttgaggccc ccccaagcat atggtctagg attgtgagct ttggttctgg
3061 ctggggcttc tgggtatcac caagcctgtt cataacatca actcatgtaa tccccgcagg
3121 cataacagaa gcgtttggag tccccatcaa acaaattcag atccacaaat caggtgaatt
3181 ttgccgattc agattcccaa aaccaattag accagatgtg acaggaatga tcttggaaga
3241 aggtgcgcct gaaggcaccg tggcaactgt gctcatcaaa cgccccaccg gagagctcat
3301 gcctcttgca gccagaatgg gaacacacgc aaccatgaaa attcaaggcc gcatggttgg
3361 cggacagatg ggtatgttgc tcactggatc aaatgccaaa ggaatggatt tgggaacaac
3421 tcctggtgac tgtggctgtc cttacatcta taagaggggc aatgactaca tagtcattgg
3481 ggtgcacact gcagcagccc gaggtggaaa caccgtcatc tgtgctacac agggaagtga
3541 gggtgaggca actcttgagg gtggagatga caaaggaaca tactgtgggg cacccatttt
3601 aggccctggg ggtgcaccaa aattgagcac caaaaccaaa ttttggaggt catcgaacac
3661 gccccttcca ccagggacat atgagcctgc ctacctcggt ggccgtgatc cgcgtgttaa
3721 gggtgggccc tccttgcagc aggtaatgag agaccagttg aagccattca ctgaacccag
3781 gggcaaacct ccaagaccaa gtgtattgga agcagccaaa caaaccatta tcaatgtcct
3841 cgaacaaacc ctggaccctc cacaaaaatg gacatacgca caggcgtgtg cctcacttga
3901 caaaaccacc tccagcgggc atccccatca cgcccgaaag aatgaattct ggaatggtga
3961 gaccttcact ggtaaattgg cagaccaagc atcaaaagca aacctaatgt ttgaggaagg
4021 gaaacacatg acaccagtgt atacagcagc actcaaggat gagctagtca agactgagaa
4081 aatctatgga aagatcaaga agagactact ctggggctct gacttgtcca ccatgatccg
4141 gtgcgctagg tcatttggtg ggctcatgga cgagatgaag gcacactgca tatcactccc
4201 agtacgagtt ggcatgaata tgaatgaaga tggcccaata atatttgaga aacattccag
4261 atataaatac cactatgatg cagactactc tcgttgggat tcaacacaac agagggcagt
4321 actagcagca gctttggaaa tcatggtcag attctctgca gaaccacaat tggcacaaat
4381 agtcgctgag gatctgctgg cccctagtgt agtagatgta ggagacttta aaatcacaat
4441 aaatgaaggg ctcccatctg gtgtgccatg cacttctcaa tggaactcca tcgcacactg
4501 gctgctaact ctctgtgcct tgtctgaagt caccaaactg tcccctgaca ttatacaagc
4561 aaattccatg ttctcatttt acggtgatga cgagattgtc agcaccgaca taaaattgga
4621 ccctgaacag ttaaccgcca agttgaagga gtacggcctg aaaccaaccc gcccagacaa
4681 gaccgaggga cccctgatca tcagtgaaga tttgaacgga ctcactttcc tccgaaggac
4741 ggtgactcgt gacccagctg gctggtttgg aaaactggac caaagctcaa ttttgagaca
4801 gatgtactgg actagaggac caaatcatga agaccccaat gagacaatga taccccattc
4861 tcaaagaccc atacagctca tggcactgct tggtgaagcc tctcttcacg gaccctcttt
4921 ctacagtaaa atcagtaaat tggtcataac tgaactcaaa gaaggtggga tggactttta
4981 cgtgccaagg caggaaccca tgttcaggtg gatgaggttt tctgacttga gcacgtggga
5041 gggcgatcgc aatctggctc ccaattttgt gaatgaagat ggcgtcgagt gacgccaacc
5101 catctgatgg gtccgcagcc aacctcgtac cagaggtcaa caatgaggtt atggctttgg
5161 agcccgttgt tggtgccgct attgcggcac ctatagcggg ccaacaaaat gtaattgacc
5221 cctggattag aaataatttt gtgcaagccc ctggtgggga gtttacagta tcccctagaa
5281 acgctccagg tgaaatacta tggagcgcgc ccctaggccc tgacctaaat ccctacctat
5341 cccatttggc cagaatgtac aatggttatg caggtggttt tgaagtgcag gtaattctcg
5401 cggggaacgc gttcaccgcc gggaagatca tatttgcagc agtcccacca aattttccaa
5461 ctgaaggctt aagtcctagc caagtcacta tgttccccca tataatagta gatgttagac
5521 aattagaacc tgtgctgatt cccttacccg atgttaggaa taatttctat cattataatc
5581 agtcaaatga ctccactatt aagttgatag caatgttgta tacaccactt agggctaata
5641 atgctgggga tgatgttttc acagtttcgt gccgagttct cacgagacca tcccccgatt
5701 ttgatttcat atttttagtg ccacccacag ttgagtcaag aactaaacca ttctctgtcc
5761 cagttttaac tgttgaggag atgaccaatt caagattccc cattcctttg gaaaagttgt
5821 tcacgggccc cagcagtgcc tttgttgttc aaccacaaaa cggcaggtgc acaactgatg
5881 gcgtgctcct aggcaccacc caactgtctc ctgtcaacat ctgcaccttc agaggggatg
5941 tcacccacat cacaggtagt cgcaactaca caatgaattt ggcttctcaa aattggaaca
6001 attatgaccc aacagaagaa atcccagccc ctctaggaac tccagatttt gtggggaaga
6061 ttcaaggcat gctcacccaa accacaagga cagatggttc aacacgcggc cacaaagcta
6121 cagtgtacac tgggagcgcc gactttgctc caaaactggg tagagttcaa tttgaaactg
6181 acacagacca tgattttgaa gctaatcaaa acacaaagtt caccccagtc ggtgtcatcc
6241 aagatggtag caccacccac cgaaacgaac cccaacagtg ggtgctccca agttactcag
6301 gcagaaatac tcacaatgta catctggccc ccgctgtagc ccccaccttt ccgggtgagc
6361 aacttctctt cttcagatcc accatgcccg gatgcagcgg gtaccccaac atggatttgg
6421 actgtctgct cccccaggaa tgggtgcagt acttctacca agaggcagcc ccagcacaat
6481 ctgatgtggc tctgctaaga tttgtgaatc cagacacagg tagggttttg tttgagtgca
6541 agcttcacaa atcaggctat gttacagtgg ctcacactgg ccaacatgat ttggttatcc
6601 ctcccaatgg ttactttagg tttgattcct gggtcaacca gttctacacg cttgccccca
6661 tgggaaatgg aacggggcgt agacgtgtag tataatggct ggagctttct ttgctggatt
6721 ggcatctgat gtccttggct ctggacttgg ttccctcatc aatgctgggg ctggggccat
6781 caaccaaaaa gttgagtttg aaaataacag aaaattacaa caagcatcct tccaatttag
6841 cagcaatctg caacaggctt cctttcaaca tgataaagag atgctccaag cacaaattga
6901 ggccaccaaa aagctacaac aggaaatgat gaaagttaag caggcagtgc tcctagaggg
6961 tgggttctct gagacagatg cagcccgcgg ggcaattaac gcccccatga caaaagcttt
7021 ggattggagc gggacaaggt actgggctcc cgatgctagg actacaacat acaatgcagg
7081 ccgcttttcc acccctcaac catcgggggc actgccagga agagctaatc ttagggatgc
7141 tgtccctgct cggggaccct ccaacaaatc ttctaactct tctactgtca cctctgtgta
7201 ctcaaatcaa actatttcaa cgagacttgg ttctacagct ggttctggaa ccagtgtctc
7261 gagcctcccg tcaactgcaa ggactaggag ctgggttgag gatcaaagta ggaatttgtc
7321 acctttcatg aggggggccc acaacatatc atttgtcacc ccaccatcta gcagatcctc
7381 tagccaaggc acagtctcaa ccgtgcctaa agagattttg gactcctgga ctggcgcttt
7441 caacacgcgc aggcagcctc tcttcgctca cattcgtaag cgaggggagt cacgggtgta
7501 a
//