Typing tool
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Typing tool
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Complete norovirus genomes
| MT344180 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5094
ORF2: 5075..6697
ORF3: 6697..7503
LOCUS MT344180 7583 bp RNA linear VRL 01-MAY-2020
DEFINITION Norovirus GII isolate 782-2 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MT344180
VERSION MT344180.1
DBLINK BioProject: PRJNA604000
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7583)
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 (13-APR-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 GWB v. 11
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7583
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="782-2"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="17-Dec-2018"
/note="genotype: GII.P16-GII.4"
gene <1..5094
/gene="ORF1"
CDS <1..5094
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QJA16354.1"
/translation="MASNDATVAVACNNNNDKEKSSGEGLFTNMSFTLKKALGARPKQ
PAPRDEPQKPPRPPTPELVKRIPPPPPNGEGEEEPVIRYEVKSGISGLPELTTVPQPD
VANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAIS
MARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGK
IKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREV
ARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTC
PLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTM
EELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLK
HARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAP
KSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTG
SEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSL
FITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPRPIRPDVTGMILEEGAPEGTV
ATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCG
CPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGYDKGTYCGAPILGPG
GAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRG
KPPRPSVLEAAKQTVINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNG
ETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYRKIKKRLLWGSDLST
MIRCARSFGGLMDEMKAHCISLPVRVGMNVNEDGPIIFEKHSRYKYHYDADYSRWDST
QQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQ
WNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEY
GLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNH
EDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPM
FRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide <1..990
/gene="ORF1"
/product="p48"
mat_peptide 991..2088
/gene="ORF1"
/product="NTPase"
mat_peptide 2089..2619
/gene="ORF1"
/product="p22"
mat_peptide 2620..3018
/gene="ORF1"
/product="VPg"
mat_peptide 3019..3561
/gene="ORF1"
/product="Pro"
mat_peptide 3562..5091
/gene="ORF1"
/product="RdRp"
gene 5075..6697
/gene="ORF2"
CDS 5075..6697
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QJA16355.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6697..7503
/gene="ORF3"
CDS 6697..7503
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QJA16356.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 atggcgtcta acgacgctac cgttgccgtt gcttgcaaca acaacaacga caaggaaaaa
61 tcttcaggtg aaggcttatt cacaaatatg tctttcacct taaagaaagc cctcggggct
121 aggcccaaac agcctgcccc gagagacgaa ccacaaaagc ccccaagacc accaaccccc
181 gagttggtca agaggatacc ccctcctcca cctaatggcg aaggagaaga agaaccagtc
241 attaggtatg aggttaagag tgggatctct ggcctgcccg agctcacaac agtcccccaa
301 ccggacgtgg ccaacacagc attcagtgtt ccaccactga gcttgagaga aaacagggag
361 gccaaggaac cgctaacagg ggcaatatta gagatgtggg atggagagat ataccactat
421 ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc agccataagc
481 atggcaagag tggagctgac gccgctgtca ttgtactggc gtgtggtgta cactccccaa
541 tacctcatct cccctgaaac tctcaggagg ctcaacggag aggcgttccc ttacaccgcc
601 ttcgacaaca actgctacgc cttttgctgc tgggtgttag acctcaatga ctcatggctt
661 agcaggagga tggtgcaaag aacaacgggc ttcttcagac cttaccaaga gtggaacaga
721 aagcccctgc ctaccatgga tgactccaaa attaagaagg tagcaaatat attcctatgt
781 tcattgtcca cattattcac cagacccata aaagacctca tagggaaaat taaaccatta
841 aacatattga acatcctggc aacgtgtgac tggacgtttg ccggaatagt ggagtctctg
901 atattacttg ctgaactctt cggagttttc tggacgcccc cagatgtgtc tgctatgatc
961 gctcccttac tcggggacta cgagttgcaa gggccagaag acctcgccgt tgaactcgta
1021 cctgtggtaa tgggagggat tggtttggtg ttgggattca ccaaagagaa aattggcaaa
1081 atgttgtcct cagcagcatc aacactcagg gcttgcaaag atcttggtgc ctatggctta
1141 gagatactca agttggtcat gaagtggttc ttcccaaaga aagaggaggc caatgagcta
1201 gccatggtga gggccataga ggatgccgtg ctagatcttg aggcaataga aaataaccac
1261 atgacaaccc tgttgaaaga caaagacagc ttagcaacat acatgaaaac actggacatg
1321 gaggaggaga aagccagaag gttgtccaca aaatctgcat cccctgacat agttgggaca
1381 atcaacgccc tgctggctcg aatagcagcg gccaggtcat tagtccacag ggccaaggaa
1441 gagctatcta gcaggataag gccagtagtt gttatgatat ctggcaaacc aggaataggc
1501 aaaactcatc tggccaggga ggtggcaaga aaggtggcat ccactctcac aggggaccaa
1561 agagtcggac tcataccaag aaacggtgtg gaccattggg atgcatacaa aggtgagaga
1621 gtcgtgctgt gggacgacta tggcatgagt aaccccatcc atgatgctct tcgcatacaa
1681 gaattggctg atacgtgtcc ccttacctta aattgtgaca gaattgaaaa taagggaaaa
1741 gtttttgaca gtgaagtcat aataattaca acaaaccttg ccaatccagc cccacttgat
1801 tatgtcaact ttgaggcctg ttccaggaga attgatttcc tggtgtacgc tgaggcacca
1861 gaagtagaaa aggcaaaacg ggactttcct ggtcagccag atatgtggaa ggacgccttc
1921 aagccggact tttcacacat caagctacag cttgcacctc agggcggctt tgacaagaat
1981 ggcaacaccc cacatgggaa aggagtgatg aagaccctca ctaccggttc tctgattgcc
2041 cgtgcatcag gcctactaca tgagaggatg gatgaatttg aactccaagg tcccacaatc
2101 accaccttca atttcgaccg aaacagaatc acagcattca gacaattggc tgcagaaaac
2161 aagtatggat tggtggatac catgaaagtt ggcaatcaat taaaaggagt gaaaaccatg
2221 gaagaactca aacaagcaat cagaaatgtg accatcaaga ggtgccggat catctacggt
2281 ggctccacgt atgaccttga atctgatggc aagggcaaag ttttggtgga aaaggtcaag
2341 aacacctctg tacagaccaa caacgagttg gccggggccc tgcaccatct caaacacgcc
2401 cgaatcaggt actatgtcaa atgtgtgcaa gaagcagtct attccatcat acaaattgcc
2461 ggcgctgcgt ttgtcaccac gcgcattgca cgccgcatga acatacaaga actctggtcg
2521 aagccacaat tagatcaaaa tgaatcagag actaaggaag aggcccccaa atcagaagat
2581 gacgagttca tcatatcttc taaggacatc aaggaggaag gaaagaaggg caaaaacaaa
2641 actggccgtg gcaagaaaca cactgcattc tccagcaagg gcttgagcga tgaggagtat
2701 gacgagtaca agaggataag agaagagaga aatgggaagt actctataga ggagtatctt
2761 caagacagag acaggtacta tgaggagctc gccattgcca aggccacgga agaagacttc
2821 tgtgaagagg aggagataaa aatccgtcag agaattttcc gtcccaccag gaaacaaaga
2881 aaggaagaga gggccacatt aggactggta acaggttcag aaatcagaaa aagaaaccct
2941 gatgacttca aacccaaagg gaagctgtgg gccgatgaca acagaagtgt tgactataat
3001 gagaaactgg actttgaggc ccccccaagc atatggtcta ggattgtgag ctttggttct
3061 ggctggggct tctgggtatc accaagcctg ttcataacat caactcatgt aatccccgca
3121 ggcataacag aagcatttgg agtccccatc aaacaaattc agatccacaa atcaggtgaa
3181 ttttgccgat tcagattccc aagaccaatt agaccagacg tgacaggaat gatcttggaa
3241 gaaggtgcgc ctgaaggcac cgtggcaact gtgctcatca aacgccccac cggagagctc
3301 atgcctcttg cagccagaat gggaacacac gcaaccatga aaattcaagg ccgcatggtt
3361 ggcggacaga tgggtatgtt gctcactgga tcaaatgcta aaggaatgga tttgggaaca
3421 actcctggtg actgtggctg tccttacatc tacaaaaggg gcaatgacta tatagtcatt
3481 ggggtgcaca ctgcagcagc ccgtggtgga aacaccgtca tctgtgccac acagggaagt
3541 gagggtgagg caactcttga gggtggatat gacaaaggaa catactgtgg ggcacccatt
3601 ctaggccctg ggggtgcacc aaagttgagc accaaaacca aattttggag gtcatcgaac
3661 acgcccctcc caccagggac atatgagcct gcctacctcg gtggccgtga tccgcgtgtt
3721 aagggtgggc cctccttgca gcaggtaatg agagaccagt tgaagccatt cactgaaccc
3781 aggggcaaac ctccaagacc aagtgtattg gaagcagcca aacaaaccgt tatcaatgtc
3841 ctcgaacaaa ccctggatcc tccacaaaaa tggacatacg cacaggcgtg tgcctcactt
3901 gacaaaacca cttccagcgg gcatcctcat cacgtccgaa agaatgaatt ctggaatggt
3961 gagaccttca ccggcaaatt ggcagaccaa gcatcaaaag caaacctaat gtttgaggaa
4021 gggaaacaca tgacaccagt gtatacagca gcactcaagg acgagctagt caagactgag
4081 aaaatctata gaaagatcaa gaagagactg ctctggggct ctgacttgtc caccatgatc
4141 cggtgcgcta ggtcatttgg tgggctcatg gacgagatga aggcacactg catatcactc
4201 ccagtacgag ttggcatgaa tgtgaatgaa gatggcccaa taatatttga gaaacattcc
4261 agatacaaat accactatga cgcagactac tctcgttggg attcaacaca acagagggca
4321 gtactagcag cagccttgga aatcatggtc agattctctg cagaaccaca attggcacaa
4381 atagtcgctg aggatcttct ggcccctagc gtagtagatg taggagactt taaaatcact
4441 ataaatgaag ggctcccatc tggtgtgcca tgcacctccc aatggaactc catcgcacac
4501 tggctgctaa ctctctgtgc cttgtctgaa gtcaccaaac tgtcccctga cattatacaa
4561 gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagcaccga cataaaattg
4621 gaccctgaac agttaaccgc caagttgaag gagtatggcc tgaaaccaac ccgcccagac
4681 aagaccgagg gacccctgat catcagtgaa gatttgaacg gactcacttt cctccgaagg
4741 acggtgactc gtgacccagc tggctggttt ggaaaactgg accaaagttc aattttgagg
4801 cagatgtact ggactagagg accaaatcac gaagatccca atgagacaat gataccccat
4861 tctcaaagac ccatacagct catggcactg cttggtgaag cctctcttca cggaccctct
4921 ttctacagta gaatcagtaa attggtcata actgaactca aagaaggtgg gatggacttt
4981 tacgtgccaa ggcaggaacc catgttcagg tggatgaggt tttctgactt gagcacgtgg
5041 gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga gtgacgccaa
5101 cccatctgat gggtccgcag ccaacctcgt accagaggtc aacaatgagg ttatggcttt
5161 ggagcccgtt gtcggtgccg ctattgcggc acctgtagcg ggccaacaaa atgtaattga
5221 cccctggatt agaaataatt ttgtacaagc ccctggtggg gagtttacag tatcccccag
5281 aaacgctcca ggtgaaatac tatggagcgc gcccctaggc cctgacctaa atccctacct
5341 atcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc aggtaattct
5401 cgcggggaac gcgttcaccg ccgggaagat catatttgca gcagtcccac caaattttcc
5461 aactgaaggc ttaagtccta gccaggtcac tatgttcccc catataatag tagatgttag
5521 acagttagaa cctgtgctga ttcctttacc cgatgttagg aataatttct atcattacaa
5581 tcagtcaaat gactccacta ttaagttgat agcaatgttg tacacaccac ttagggctaa
5641 taatgctggg gatgatgttt tcacagtttc gtgccgagtt ctcacgagac catcccccga
5701 ttttgatttc atatttttag tgccacccac agttgagtca agaactaaac cattctctgt
5761 cccagtttta actgttgagg agatgaccaa ttcaagattc cccatccctt tggaaaagct
5821 gttcacaggc cccagcagtg cctttgttgt tcaaccacaa aacggcaggt gcacaactga
5881 tggcgtgctc ctaggcacca cccaactttc tcctgtcaac atctgcacct tcagagggga
5941 tgtcacccac atcacaggta gtcgcaacta cacaatgaat ttggcttctc aaaattggaa
6001 caactatgac ccaacagaag aaatcccagc ccctctagga actccagatt ttgtggggaa
6061 gattcaaggc atgctcaccc aaaccacaag gacagatggt tcaacacgcg gccacaaagc
6121 tacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc aatttgaaac
6181 tgacacagac catgattttg aagctaatca aaacacaaag ttcaccccag tcggtgtcat
6241 ccaagatggt agcaccaccc atcgaaacga accccaacag tgggtgctcc caagttactc
6301 aggcagaaat actcacaatg tacatctggc ccccgctgta gcccccacct ttccgggtga
6361 gcaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca acatggattt
6421 ggactgtctg ctcccccagg aatgggtgca gtacttctat caagaggcag ccccagcaca
6481 atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt tgtttgagtg
6541 caagcttcac aaatcaggct atgttacagt ggctcacact ggccaacatg atttggttat
6601 cccccccaat ggctacttta gatttgattc ctgggtcaac cagttctata cgcttgcccc
6661 catgggaaat ggaacggggc gtagacgtgt agtataatgg ctggagcttt ctttgctgga
6721 ttggcatctg atgtccttgg ctctggactt ggttccctca tcaatgctgg ggctggggcc
6781 atcaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc cttccaattt
6841 agcagcaatc tgcaacaggc ttcctttcaa catgataaag agatgctcca agcacaaatt
6901 gaggccacta aaaagctaca acaggaaatg atgaaagtta agcaggcaat gctcctagag
6961 ggtgggttct ctgagacaga tgcagcccgc ggggcaatta acgcccccat gacaaaagct
7021 ttggactgga gtgggacaag gtactgggct cccgatgcta ggactacaac atacaatgca
7081 ggccgctttt ccacccctca accatcgggg gcactgccag gaagagctaa tcttagggat
7141 gctgtccctg ctcggggacc ctccaacaaa tcttctaact cttctactgc cacctctgtg
7201 tattcaaatc aaactatttc aacgagactt ggttctacag ctggttctgg aaccagtgtc
7261 tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaaa taggaatttg
7321 tcacctttca tgaggggggc ccacaacata tcatttgtca ccccaccatc tagcagatcc
7381 tctagccaag gcacagtctc aaccgtgcct aaagagattt tggactcctg gactggcgct
7441 ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga gtcacgggtg
7501 taatgtgaaa agacaaaatt gattattttt ctttttcttt agtgtctttt actcacaatg
7561 tacatctggc ccccgctgta gcc
//