Typing tool
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Typing tool
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Complete norovirus genomes
| MT344181 | GII.17 | |
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| GII.P17 |
ORF1: 1..5103
ORF2: 5084..6706
ORF3: 6706..7485
LOCUS MT344181 7562 bp RNA linear VRL 01-MAY-2020
DEFINITION Norovirus GII isolate 118-3 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MT344181
VERSION MT344181.1
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 7562)
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..7562
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="118-3"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="18-Dec-2015"
/note="genotype: GII.P17-GII.17"
gene <1..5103
/gene="ORF1"
CDS <1..5103
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QJA16357.1"
/translation="MASNDASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGARSK
QPPPGETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVVQP
DAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAI
SFAKIEITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDLND
SWLSRRMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDIIG
KLRPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPE
DLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWFF
PKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLS
TKSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARE
LAKKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADT
CPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIE
KAKRDFPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIAR
ASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVKT
LDELKQAIKNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALHHL
RSARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDRGG
CPKPRDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERN
GKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGL
VTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVS
PSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPE
GTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPG
DCGCPYIYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPIL
GPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTE
PRGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKNDY
WSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGSD
LSTMIRCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRW
DSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVPC
TSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKL
KEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRG
PNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQ
ESMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..993
/gene="ORF1"
/product="p48"
mat_peptide 994..2091
/gene="ORF1"
/product="NTPase"
mat_peptide 2092..2628
/gene="ORF1"
/product="p22"
mat_peptide 2629..3027
/gene="ORF1"
/product="VPg"
mat_peptide 3028..3570
/gene="ORF1"
/product="Pro"
mat_peptide 3571..5100
/gene="ORF1"
/product="RdRp"
gene 5084..6706
/gene="ORF2"
CDS 5084..6706
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QJA16358.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN
DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLLFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6706..7485
/gene="ORF3"
CDS 6706..7485
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QJA16359.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSMYTQST
HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 atggcgtcta acgacgcttc cgctgccgtt gctggcaaaa acaacaacaa cgacaaggaa
61 aaatcttcaa gtgacagcct gtttgctaac atgtctgtca cttttaagaa agccctcggg
121 gcgcggtcta aacaaccgcc cccgggagaa acaaaacaaa tacaaaaacc accaaggcca
181 ccgacaccgg aattggtgaa gagaatacct ccacccccac ccaatggcga ggatgaacca
241 gggatagtgt acaaggtggg agagggtgtg tctgggctgc ccgacctaac aactgtggta
301 caacctgacg cacaaaacac agcttatagt gttcccccac ttagccagag agaagtcggc
361 gaagctaaag aaccgctgcc tggctccatt ctggaaatgt gggatggtga gatctaccac
421 tatgggctgt atgttgagcg ggggcatgtg ctcggagtac acaaaccacc tgctgcaata
481 agctttgcca aaattgaaat aacaccgctg tctctctact ggagagtggt ctacactccc
541 cagtatttga tagatccagg aactcttaag aacttgagtg gagagacttt cccatacacg
601 gcctttgaca acaactgtta tgccttctgt tgttgggtcc tagacctcaa cgactcctgg
661 cttagcagga gaatgatcca aagaacaact ggattcttca aaccttatca ggattggaac
721 agaaaaccct taccaaccat ggatgaaccg aaaatcaaga aggccgcgaa tgctgtccta
781 tgcgctctct cctcactctt cactagaccc atcaaggaca tcattggaaa gcttagacca
841 ctgaacattc ttaatatact ggcaacctgc gattggactt ttgcaggcat agtggaatcc
901 ttgatccttc ttgctgaact ctttggggtg ttctggacac ccccagatgt gtctgcgatg
961 attgctccct tactcggtga ctacgagatg caaggccccg aagacctggc cgtggaactt
1021 gtgcccgtgg tgatgggagg aataggtttg gtgttaggat tcaccaaaga aaagatcggc
1081 aagatgcttt catcagctgc gaccacactt agggcctgca aggatctagg atcttatgga
1141 ttggagatac tcaaattggt catgaagtgg ttcttcccca agaaggagga ggctaacgaa
1201 ctagccatgg tgagggccat tgaggatgca gtcctggatt tggaggcaat agaaaacaat
1261 cacatgacca cccttctcaa ggataaagac agcctggcca catacatgag gactctcgac
1321 ttggaagaag agaaagcaag gaaactgtca accaaatcgg cgtcacctga catcgtgggt
1381 acaataaacg cattattggc taggatagca gccgccaggt cactggtcca caaggctaag
1441 gaggagctct cgagcagaca gagacctgtt gttgtaatga tatcaggtag accaggtata
1501 ggaaagaccc atctggccag agagctagcc aagaaagttg cgtcaacact gtcaggcgac
1561 caaaggattg gactggtacc tagaaatggc gtcgaccatt gggacgccta caagggagaa
1621 agggtggttc tgtgggatga ttatggtatg agcaacccta tacaggacgc actgaggctc
1681 caagaattgg ctgacacctg tcctctgacc ctaaattgtg ataggattga aaacaaagga
1741 aaagtgttcg acagtgatgc cataattata acaaccaacc ttgcaaaccc agcaccacta
1801 gactatgtca actttgaggc ctgctctaga cgcatagact tcttggtgta tgcagacgca
1861 cctgacattg agaaggctaa gcgtgacttc cctggccaac cagatatgtg gaaagaccat
1921 ttcagaccag acttctcaca cattaaactt cagctggcac cgcagggagg ttttgacaaa
1981 aatggcaaca ccccacatgg taaaggtgta gtgaagtccc tgacgattgg ttctctgatc
2041 gccagggcct ccggcttgct ccacgagaga atggatgaat tcgagctcca aggctctgac
2101 ctgccaacct tcaattttga ccgcaacaaa gtcgccgcct tcagacaatt agcagctgaa
2161 aacaaatatg gtcttatgga cacactgagg gtcggcaacc aactgaaaag tgttaagacc
2221 ctggatgagc tgaagcaggc cataaagaac atcagtatca agaagtgtca gatagtgtat
2281 aatggatgca cctataccat ggaatctgat gggaggggca aggttgtggt tgaaaaggta
2341 caaaacgcaa cagttcaaac caacaatgaa cttgtagggg cgctccacca cctgagatct
2401 gcaaggataa gatactatgt taaatgtttc caagaagcca tttactctct actccaaatt
2461 gctggtgcag ccttcgtcac ctcacgcatc gtgaggcgca tgaacatatc aaacctctgg
2521 tcgaagccac ccatcgagga gggtgatgag cctgaagaca gagggggatg ccccaagccc
2581 agggatgaag atgacctcac tattgactct agagacatta aagtggaagg gaagaagggc
2641 aagaacaagt ctggccgggg caagaaacac acagccttct cttccaaggg cctcagtgat
2701 gaagagtacg atgagtacaa gagaatcaga gaggagagga atggcaaata ctcgatagag
2761 gaatacctcc aagataggga cagatactat gaagagcttg ccattgctaa ggccactgag
2821 gaggacttct gtgaggagga ggagatcaaa atccgccaga gaatcttccg acccaccagg
2881 aagcagcgga aagaggaaag ggccacgctt gggcttgtca caggatcgga aatcagaaag
2941 aggaatccag atgactttaa accaaaagga aaattgtggg ctgatgacaa caggagcgtg
3001 gattacaatg agaggataga ttttgaggct cccccgagtg tttggtctag gatagtcaac
3061 tttggcacag gctggggatt ctgggtttct ccaagtctct ttataacttc aacacacgtc
3121 ataccaaaag gaatcactga ggcctttgga gtgcccataa accaaatcca aattcacaaa
3181 tctggagaat tttgccgctt gcggtttcca aagccaatta ggccagacgt gagtgggatg
3241 atcttggaag agggcgcccc tgaaggcact gttgtgtcta ttctcatcaa aaggacaaca
3301 ggggagctga tgcctcttgc agtcagaatg gggactcatg ccacaatgaa aatccaaggt
3361 agaacggtgg gtggtcagat gggtatgctt ctcactggct caaatgctaa aagcatggat
3421 ctaggcacaa cgccaggtga ctgcggatgt ccatacatat acaaaagggg caatgacctt
3481 gtggtcattg gggtgcacac tgcagcagct cgtggaggca acacggtcat atgtgccaca
3541 cagggaagtg aaggtgaagc cactcttgaa ggaggtgaca acaagggtac ctattgtgga
3601 gcccccattt tgggacctgg caatgcacca aaattgagca caaagacaaa attctggaga
3661 tcctctaacg caccgcttcc cccaggtact tatgaaccag cataccttgg tgggagagac
3721 ccgcgcgtga agggaggccc atctctgcaa caagttatga gagaccaact taaacctttt
3781 acagagccca gagggaagcc accaaaccca aatgtcttag agtcagcaaa gaagactatc
3841 atcaatgttc tggaacaaac cattgacccc cctcaaaagt ggtcatatgc ccaggcttgt
3901 gcatccctcg acaagacaac ctccagtgga tacccgcacc acgtccggaa gaatgactat
3961 tggagtggtg aatccttcac aggaaaactt gcagatcagg cttcaaaagc aaatctcatg
4021 tatgaggaag gcaagcacat gcaaccagtt tacaccgcag cactcaaaga cgagctcgtg
4081 aaaactgaca aaatttatgg caaaatcaag aaaagactcc tgtggggttc tgacctctcc
4141 acaatgattc gatgcgccag agcatttggt ggtctcatgg atgaattcaa agcaaattgt
4201 attacactcc ctatcagagt tggtatgaat atgaatgaag atggtcccat aatatttgag
4261 aaacactcca ggtacaggta ccactatgat gctgattact cccgctggga ctccacacaa
4321 cagcgggcag tgctggaagc ggcacttgaa atcatggtga gattttctgc tgagccacag
4381 ctggcacaaa tagtggcaga ggacctgctg tcaccaagtg tggttgatgt gggcgatttc
4441 aaaatcgcta tcaatgaagg cctaccatct ggcgtgcctt gcacctcaca atggaattct
4501 attgcccact ggttacttac cttgtgtgcc ctttctgaag tgacaggatt aggtcctgac
4561 atcatacaag ctaactccat gtactctttc tatggtgatg atgagattgt gagcacagac
4621 ataaaattgg acccagagaa attgaccgca aagctcaaag aatatggcct taaacccact
4681 cggcccgaca aaactgaggg gccgttggtg attagtgagg acctgaatgg gttgactttc
4741 ctccgccgaa cagtcacccg tgatccagca ggttggtttg gaaagttgga ccaaaactcc
4801 atcctcaggc agttgtactg gacaagagga cccaaccatg aagaccccag tgagaccatg
4861 ataccacacg cacaaagacc tgtgcagctc atggcactac taggagaatc ctccctacat
4921 ggaccctcat tttacagcaa ggttagcaaa ttagtcatat ctgaacttaa agagggagga
4981 atggattttt atgtgcccag acaagagtca atgttcagat ggatgaggtt ctcagatcta
5041 agcacatggg agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgaa
5101 tgacgccgct ccatctaatg atggtgctgc tggtctcgta ccagagggca acaacgagac
5161 ccttccccta gaaccagttg cgggcgcagc tatagccgca cccgtcactg gccaaaataa
5221 cataattgac ccctggatta gaacaaattt tgtgcaagca ccaaatggag agttcacagt
5281 gtcacccaga aactctcctg gagaaatttt attaaactta gagttgggcc ctgatttgaa
5341 cccttatttg gctcatttgt caaggatgta caatgggtat gctggtggag tggaagttca
5401 ggttctcctg gcagggaacg cgttcactgc cggaaagatc ctcttcgccg ccgtcccgcc
5461 aaatttccca gtggaattct taagcccagc ccagatcaca atgctcccac atttaatagt
5521 agatgttagg actcttgaac caattatgat cccactccct gatgttagga atacattctt
5581 ccattatagt aaccagccta acagccgcat gagattagtg gctatgctct ataccccact
5641 cagatctaat ggctcaggtg atgatgtctt tactgtctct tgcagggttt tgactaggcc
5701 tactcctgat tttgagttca cttatttagt gccaccttct gttgaatcta aaactaagcc
5761 tttttcctta cctattttaa ccctttctga gctcacaaat tcgaggttcc cagtccccat
5821 cgattcgctt ttcaccgccc agaataatgt gttgcaggtg cagtgtcaaa atggcaggtg
5881 tacacttgat ggtgagttac aaggcacaac ccagttgctc ccatctggca tctgtgcatt
5941 cagaggacgg gtgacagcac aaattaacca acgtgacagg tggcacatgc aactgcaaaa
6001 cctcaatggt acaacatatg acccaactga tgatgtgcca gccccgctgg gtacacctga
6061 cttcaagggc gtcgtgtttg ggatggtaag ccaaagaaat gtgggtaatg atgcgcctgg
6121 ctcaaccaga gcccaacagg cgtgggtttc aacctatagc ccccaatttg tccccaaatt
6181 aggttctgtc aatcttagaa ttagtgataa tgatgatttc caattccagc cgacaaaatt
6241 cacaccagtg ggcgtcaatg atgacgatga tggccacccg ttcagacaat gggaactacc
6301 aaactattca ggggagctta ccttgaacat gaatcttgcc cccccagttg ctccaaattt
6361 tcctggtgaa caattgttat tattcagatc tttcgtgcca tgctcaggag gttacaacca
6421 aggtattata gattgtctta ttccccaaga atggatccaa cacttctatc aggaatcagc
6481 accctcccag tcagacgtgg ccctaatcag gtatgtcaac cccgatacgg gacgtacact
6541 gtttgaagca aaattgcaca gatctggtta cattactgtg gctcactctg gagactatcc
6601 tcttgttgtt ccggctaatg gacactttag atttgattct tgggtaaatc agttttactc
6661 actcgcccca atgggaactg ggaatgggcg aaggagggct cagtaatggc tggggctttc
6721 attgcaggat tggcaggcga catgctcacg tcatctgtgg gctcccttgt gaacgcaggg
6781 gcaaacgcca tcaaccaaaa gatagacttt gaaaacaaca aacaactcca gtctgcttcc
6841 tttcagcatg ataaagagat gctccaagcg caggtgaggg caaccaagca gctgcaatct
6901 gaaatgatag ccctaaaaca gggggttttg gccgcaggcg gcttttcccc cactgatgca
6961 gcaaggggat ccattggtgc acccatgaca aaggtgcttg actggtctgg cactcgatac
7021 tgggcgccca attccacaaa gacaactggc tattcgggac aattcacctc ttcacctgtg
7081 catatgtcta gcccaaatgc tccacaatca aaacctgcaa agcctaggtc tctagctcct
7141 tcctcttctt ctagcagtgt ctatagtatg tatacccaat ctactcattt aacatctggc
7201 tcttctagta atgcttcttc tgcctccaca aaattgacaa atttaagctc tggctcctct
7261 caaaacagaa cagcagagtg ggtaaatcaa cagagaagtc ttagcccttt catgagtggc
7321 gcacttaaca tctcacatgt cacgccaccc tcaagtaggg cttccagttc tgggacggtc
7381 tcgaccgtgc ccaaggaagt tttggactcc tggacgtctg cgtttaacac acacagacag
7441 ccgctcttcg cacacctcag agtgaggggg gagtcacgtg tttagtgaaa agaaataatt
7501 ggctataatg tgatttcttt ctaaatttgg ctaatttgta tcttttaaaa aaaaaaaaaa
7561 aa
//