Typing tool
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Typing tool
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Complete norovirus genomes
| MT238665 | GII.17 | |
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| GII.P17 |
ORF1: 1..5101
ORF2: 5082..6704
ORF3: 6704..7483
LOCUS MT238665 7529 bp RNA linear VRL 01-MAY-2020
DEFINITION Norovirus GII isolate 147-1 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MT238665
VERSION MT238665.1
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 7529)
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..7529
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="147-1"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="17-Dec-2015"
/note="genotype: GII.P17-GII.17"
gene <1..5101
/gene="ORF1"
CDS <1..5101
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="QIQ09382.1"
/translation="ASNDASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGARSKQ
PPPGETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVVQPD
AQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAIS
LAKIEITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDIIGK
LRPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWFFP
KKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLAREL
AKKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEK
AKRDFPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIARA
SGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVKTL
DELKQAIKNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALHHLR
SARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDRGGC
PKPRDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSP
SLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEG
TVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKNDYW
SGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
STMIRCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRGP
NHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQE
SMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..991
/gene="ORF1"
/product="p48"
mat_peptide 992..2089
/gene="ORF1"
/product="NTPase"
mat_peptide 2090..2626
/gene="ORF1"
/product="p22"
mat_peptide 2627..3025
/gene="ORF1"
/product="VPg"
mat_peptide 3026..3568
/gene="ORF1"
/product="Pro"
mat_peptide 3569..5098
/gene="ORF1"
/product="RdRp"
gene 5082..6704
/gene="ORF2"
CDS 5082..6704
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QIQ09383.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN
DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6704..7483
/gene="ORF3"
CDS 6704..7483
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QIQ09384.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSMYTQST
HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 ggcgtctaac gacgcttccg ctgccgttgc tggcaaaaac aacaacaacg acaaggaaaa
61 atcttcaagt gacagcttgt ttgctaacat gtctgtcact tttaagaaag ccctcggggc
121 gcggtctaaa caaccgcccc cgggagaaac aaaacaaata caaaaaccac caaggccacc
181 gacaccggaa ttggtgaaga gaatacctcc acccccaccc aatggcgagg atgaaccagg
241 gatagtgtac aaggtgggag agggtgtgtc tgggctgccc gacctaacaa ctgtggtaca
301 acctgacgca caaaacacag cttatagtgt tcccccactt agccagagag aagtcggcga
361 agctaaagaa ccgctgcctg gctccattct ggaaatgtgg gatggtgaga tctaccacta
421 tgggctgtat gttgagcggg ggcatgtgct cggagtacac aaaccacctg ctgcaataag
481 ccttgccaaa attgaaataa caccgctgtc tctctactgg agagtggtct acactcccca
541 gtatttgata gatccaggaa ctcttaagaa cttgagtgga gagactttcc catacacggc
601 ctttgacaac aactgttatg ccttctgttg ttgggtccta gacctcaacg actcctggct
661 tagcaggaga atgatccaaa gaacaactgg attcttcaaa ccttatcagg attggaacag
721 aaaaccctta ccaaccatgg atgaaccgaa aatcaagaag gccgcgaatg ctgtcctatg
781 cgctctctcc tcactcttca ctagacccat taaggacatc attggaaagc ttagaccact
841 gaacattctt aatatactgg caacctgcga ttggactttt gcaggcatag tggaatcctt
901 gatccttctt gctgaactct ttggggtgtt ctggacaccc ccagatgtgt ctgcgatgat
961 tgctccctta ctcggtgact acgagatgca aggccccgaa gacctggccg tggaacttgt
1021 gcccgtggtg atgggaggaa taggtttggt gttaggattc accaaagaaa agatcggcaa
1081 gatgctttca tcagctgcga ccacacttag ggcctgcaag gatctaggat cttatggatt
1141 ggagatactc aaattggtca tgaagtggtt cttccccaag aaggaggagg ctaacgaact
1201 agccatggtg agggccattg aggatgcagt cctggatttg gaggcaatag aaaacaatca
1261 catgaccacc cttctcaagg ataaagacag cctggccaca tacatgagga ctcttgactt
1321 ggaagaagag aaagcaagga aactgtcgac caaatcggcg tcacctgaca tcgtgggtac
1381 aataaacgca ttattggcta ggatagcagc cgccaggtca ctggtccaca aggctaagga
1441 ggagctctcg agcagacaga gacctgttgt tgtaatgata tcaggtagac caggtatagg
1501 aaagacccat ctggccagag agctagccaa gaaagttgcg tcaacactgt caggcgacca
1561 aaggattgga ctggtaccta gaaacggcgt cgatcattgg gacgcctaca agggagaaag
1621 ggtggttctg tgggatgatt atggtatgag caaccctata caggacgcac tgaggctcca
1681 agaattggct gacacctgtc ctctgaccct aaattgtgat aggattgaaa acaaaggaaa
1741 agtgttcgac agtgatgcca taattataac aaccaacctt gcaaacccag caccactaga
1801 ctatgtcaac tttgaggcct gctctagacg catagacttc ttggtgtatg cagacgcacc
1861 tgacattgag aaggctaagc gtgacttccc tggccaacca gatatgtgga aagaccattt
1921 tagaccagac ttctcacaca ttaaacttca gctggcacca cagggaggtt ttgacaaaaa
1981 tggcaacacc ccacatggca aaggtgtggt gaagtccctg acgattggtt ctctgatcgc
2041 cagggcctcc ggcttgctcc acgagagaat ggatgaattc gagctccaag gctctgacct
2101 gccaaccttc aattttgacc gcaacaaagt cgccgccttc agacaattag cagctgaaaa
2161 caaatatggt cttatggaca cactgagggt cggcaaccaa ctgaaaagtg ttaagaccct
2221 ggatgagctg aagcaggcca taaagaacat cagtatcaag aagtgtcaga tagtgtataa
2281 tggatgcacc tataccatgg aatctgatgg gaggggcaag gttgtggttg aaaaggtaca
2341 aaacgcaaca gttcaaacca acaatgaact tgtaggggcg ctccaccacc tgagatctgc
2401 aaggataaga tactatgtta aatgtttcca agaagccatt tactctctac tccaaattgc
2461 tggtgcagcc ttcgtcacct cacgcatcgt gaggcgcatg aacatatcaa acctctggtc
2521 gaagccaccc atcgaggagg gtgatgagcc tgaagacaga ggaggatgcc ccaagcccag
2581 ggatgaagat gacctcacta ttgactctag agacattaaa gtggaaggga agaagggcaa
2641 gaacaagtct ggccggggca agaaacacac agccttctct tccaagggcc tcagtgatga
2701 agagtacgat gagtacaaga gaatcagaga ggagaggaat ggcaaatact caatagagga
2761 atacctccaa gatagggaca gatactatga agagcttgcc attgctaagg ccactgagga
2821 ggacttctgt gaggaggagg agatcaaaat ccgccagaga atcttccgac ccaccaggaa
2881 gcagcggaaa gaggaaaggg ccacgcttgg gcttgtcaca ggatcggaaa tcagaaagag
2941 gaatccagat gactttaaac caaaaggaaa attgtgggct gatgacaaca ggagcgtgga
3001 ttacaatgag aggatagatt ttgaggctcc cccgagtgtt tggtctagga tagtcaactt
3061 tggcacaggc tggggattct gggtttctcc aagtctcttt ataacttcaa cacacgtcat
3121 accaaaagga atcactgagg cctttggagt gcccataaac caaattcaaa ttcacaaatc
3181 tggagaattt tgccgcttgc ggtttccaaa gccaattaga ccagacgtga gtgggatgat
3241 cttggaagag ggcgcccctg aaggcactgt tgtgtctatt ctcatcaaaa ggacaacagg
3301 ggagctgatg cctcttgcag tcagaatggg gactcatgcc acaatgaaaa tccaaggtag
3361 aacggtgggt ggtcagatgg gtatgcttct cactggctca aatgctaaaa gcatggatct
3421 aggcacaacg ccaggtgact gcggatgtcc atacatatac aaaaggggca atgaccttgt
3481 ggtcattggg gtgcacactg cagcagctcg tggaggcaac acggtcatat gtgccacaca
3541 gggaagtgaa ggtgaagcca ctcttgaagg aggtgacaac aagggtacct attgtggagc
3601 ccccattttg ggacctggca atgcaccaaa attgagcaca aagacaaaat tctggagatc
3661 ctctaacgca ccgcttcccc caggtactta tgaaccagca taccttggtg ggagagaccc
3721 gcgcgtgaag ggaggcccat ctctgcaaca agttatgaga gaccaactta aaccttttac
3781 agagcccaga gggaagccac caaacccaaa tgtcttagag tcagcaaaga agactatcat
3841 caatgttctg gaacaaacca ttgacccccc tcaaaagtgg tcatatgccc aagcttgtgc
3901 atccctcgac aagacaacct ccagtggata cccgcaccac gtccggaaga atgactattg
3961 gagtggtgaa tccttcacag gaaaacttgc agatcaggct tcaaaagcaa atctcatgta
4021 tgaggaaggc aagcacatgc aaccagttta caccgcagca ctcaaagacg agctcgtgaa
4081 aactgacaaa atttatggca aaatcaagaa aagactcctg tggggttctg acctctccac
4141 aatgattcga tgcgccagag catttggtgg tctcatggat gaattcaaag caaattgtat
4201 tacactccct atcagagttg gtatgaatat gaatgaagat ggtcccataa tatttgagaa
4261 acactccagg tacaggtacc actatgatgc tgattactcc cgctgggact ccacacaaca
4321 gcgggcagtg ctggaagcgg cacttgaaat catggtgaga ttttctgctg agccacagct
4381 ggcacaaata gtggcagagg acctgctgtc accaagtgtg gttgatgtgg gcgatttcaa
4441 aatcgctatc aatgaaggcc taccatctgg cgtgccttgc acctcacaat ggaattctat
4501 tgcccactgg ttacttacct tgtgtgccct ttctgaagtg acaggattag gtcctgacat
4561 catacaagct aactccatgt actctttcta tggtgatgat gagattgtga gcacagacat
4621 aaaattggac ccagagaaat tgaccgcaaa gctcaaagaa tatggcctta aacccactcg
4681 gcccgacaaa actgaggggc cgttggtgat tagtgaggac ctgaatgggt tgactttcct
4741 ccgccgaaca gtcacacgtg atccagcagg ttggtttgga aagttggacc aaaactccat
4801 cctcaggcag ttgtactgga caagaggacc caaccatgaa gaccccagtg agaccatgat
4861 accacacgca caaagacctg tgcagctcat ggcactacta ggagaatcct ccctacatgg
4921 accctcattt tacagcaagg ttagcaaatt agtcatatct gaacttaaag agggaggaat
4981 ggatttttat gtgcccagac aagagtcaat gttcagatgg atgaggttct cagatctaag
5041 cacatgggag ggcgatcgca atctggctcc cagttttgtg aatgaagatg gcgtcgaatg
5101 acgccgctcc atctaatgat ggtgctgctg gtctcgtacc agagggcaac aacgagaccc
5161 ttcccctaga accagttgcg ggcgcagcta tagccgcacc cgtcactggc caaaataaca
5221 taattgaccc ctggattaga acaaattttg tgcaagcacc aaatggagag ttcacagtgt
5281 cacccagaaa ctctcctgga gaaattttat taaacttaga gttgggccct gatttgaacc
5341 cttatttggc tcatttgtca aggatgtaca atgggtatgc tggtggagtg gaagttcagg
5401 ttctcctggc agggaacgcg ttcactgccg gaaagatcct cttcgccgcc gtcccgccaa
5461 atttcccagt ggaattctta agcccagccc agatcacaat gctcccacat ttaatagtag
5521 atgttaggac tcttgaacca attatgatcc cactccctga tgttaggaat acattcttcc
5581 attatagtaa ccagcctaac agccgcatga gattagtggc tatgctctat accccactca
5641 gatctaatgg ctcaggtgat gatgtcttta ctgtttcttg cagggttttg actaggccta
5701 ctcctgattt tgagttcact tatttagtgc caccttctgt tgaatctaaa actaagcctt
5761 tttccttacc tattttaacc ctttctgagc tcacaaattc gaggttccca gtccccatcg
5821 attcgctttt caccgcccag aataatgtgt tgcaggtgca gtgtcaaaat ggcaggtgta
5881 cacttgatgg tgagttacaa ggcacaaccc agttgctccc atctggcatc tgtgcattca
5941 gaggacgggt gacagcacaa attaaccaac gtgacaggtg gcacatgcaa ctgcaaaacc
6001 tcaatggtac aacatatgac ccaactgatg atgtgccagc cccgctgggt acacctgact
6061 tcaagggcgt cgtgtttgga atggtaagcc aaagaaatgt gggtaatgat gcgcctggct
6121 caaccagagc ccaacaggcg tgggtttcaa cctatagccc ccaatttgtc cccaaattag
6181 gttctgtcaa tcttagaatt agtgataatg atgatttcca attccagccg acaaaattca
6241 caccagtggg cgtcaatgat gacgatgatg gccacccgtt tagacaatgg gaactaccaa
6301 actattcagg ggagcttacc ttgaatatga atcttgcccc cccagttgct ccaaattttc
6361 ctggtgaaca attgttattc ttcagatctt tcgtgccatg ctcaggaggt tacaaccaag
6421 gtattataga ttgtcttatt ccccaagaat ggatccaaca cttctatcag gaatcagcac
6481 cctcccagtc agacgtggcc ctaatcaggt atgtcaaccc cgatacggga cgtacactgt
6541 ttgaagcaaa attgcacaga tctggttaca ttactgtggc tcactctgga gactatcctc
6601 ttgttgttcc ggctaatgga cactttagat ttgattcttg ggtaaatcag ttttactcac
6661 tcgccccaat gggaactggg aatgggcgaa ggagggctca gtaatggctg gggctttcat
6721 tgcaggattg gcaggcgaca tgctcacgtc atctgtgggc tcccttgtga acgcaggggc
6781 aaacgccatc aaccaaaaga tagactttga aaacaacaaa caactccagt ctgcttcctt
6841 tcagcatgat aaagagatgc tccaagcgca ggtgagggca accaagcagc tgcaatctga
6901 aatgatagcc ctaaaacagg gggttttggc cgcaggcggc ttttccccca ctgatgcagc
6961 aaggggatcc attggtgcgc ccatgacaaa ggtgcttgac tggtctggca ctcgatactg
7021 ggcgcccaat tccacaaaga caactggcta ttcgggacaa ttcacctctt cacctgtgca
7081 tatgtctagc ccaaatgctc cacaatcaaa acctgcaaag cctaggtctc tagctccttc
7141 ctcttcttct agcagtgtct atagtatgta tactcaatct actcatttaa catctggctc
7201 ttctagtaat gcttcttctg cctccacaaa attgacaaat ttaagctctg gctcctctca
7261 aaacagaaca gcagagtggg taaatcaaca gagaagtctt agccctttca tgagtggcgc
7321 acttaacatc tcacatgtca cgccaccctc aagtagggct tccagttctg ggacggtctc
7381 gaccgtgccc aaggaagttt tggactcctg gacgtctgcg tttaacacac acagacagcc
7441 gctcttcgca cacctcagag tgagggggga gtcacgtgtt tagtgaaaag aaataattgg
7501 ctataatgtg atttctttct aaatttggc
//