Typing tool
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Typing tool
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Complete norovirus genomes
| MT238664 | GII.17 | |
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| GII.P17 |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7482
LOCUS MT238664 7548 bp RNA linear VRL 01-MAY-2020
DEFINITION Norovirus GII isolate 118-2 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MT238664
VERSION MT238664.1
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 7548)
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..7548
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="118-2"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="04-Dec-2015"
/note="genotype: GII.P17-GII.17"
gene <1..5100
/gene="ORF1"
CDS <1..5100
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QIQ09379.1"
/translation="ASNDASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGARSKQ
PPPGETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVVQPD
AQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAIS
LAKIEITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDIIGK
LRPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWFFP
KKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLAREL
AKKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEK
AKRDFPGQPDMWKDHFRSDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIARA
SGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENRYGLMDTLRVGNQLKSVKTL
DELKQAIKNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALHHLR
SARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDRGGC
PKPRDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSP
SLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEG
TVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYMYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKNDYW
SGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
STMIRCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRGP
NHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQE
SMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..990
/gene="ORF1"
/product="p48"
mat_peptide 991..2088
/gene="ORF1"
/product="NTPase"
mat_peptide 2089..2625
/gene="ORF1"
/product="p22"
mat_peptide 2626..3024
/gene="ORF1"
/product="VPg"
mat_peptide 3025..3567
/gene="ORF1"
/product="Pro"
mat_peptide 3568..5097
/gene="ORF1"
/product="RdRp"
gene 5081..6703
/gene="ORF2"
CDS 5081..6703
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QIQ09380.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGSDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN
DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6703..7482
/gene="ORF3"
CDS 6703..7482
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QIQ09381.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSMYTQST
HITSGFSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 gcgtctaacg acgcttccgc tgccgttgct ggcaaaaaca acaacaacga caaggaaaaa
61 tcttcaagtg acagcctgtt tgctaacatg tctgtcactt ttaagaaagc cctcggggcg
121 cggtctaaac aaccgccccc gggagaaaca aaacaaatac aaaaaccacc aaggccacca
181 acaccggaat tggtgaagag aatacctcca cccccaccca atggcgagga tgaaccaggg
241 atagtgtaca aggtgggaga gggtgtgtct gggctgcccg acctaacaac tgtggtacaa
301 cctgacgcac aaaacacagc ttatagtgtt cccccactta gccagagaga agtcggcgaa
361 gctaaagaac cgctgcctgg ctccattctg gaaatgtggg atggtgagat ctaccactat
421 gggctgtatg ttgagcgggg gcatgtgctc ggagtacaca aaccacctgc tgcaataagc
481 cttgccaaaa ttgaaataac accgctgtct ctctactgga gagtggtcta cactccccag
541 tatttgatag atccaggaac tcttaagaac ttgagtggag agacttttcc atacacggcc
601 tttgacaaca actgttatgc cttctgttgt tgggtcctag acctcaacga ctcctggctt
661 agcaggagaa tgatccaaag gacaactgga ttcttcaaac cttatcagga ttggaacaga
721 aaacccttac caaccatgga tgaaccgaaa atcaagaagg ccgcgaatgc tgtcctatgc
781 gctctctcct cactcttcac tagacccatt aaggacatca ttggaaagct tagaccactg
841 aacattctta atatactggc aacctgcgat tggacttttg caggcatagt ggaatccttg
901 atccttcttg ctgaactctt tggggtgttc tggacacccc cagatgtgtc tgcgatgatt
961 gctcccttac tcggtgacta cgagatgcaa ggccccgaag acctggccgt ggaacttgtg
1021 cccgtggtga tgggaggaat aggtttggtg ttaggattca ccaaagaaaa gatcggcaag
1081 atgctttcat cagctgcgac cacacttagg gcctgcaagg atctaggatc ttatggattg
1141 gagatactca aattggtcat gaagtggttc ttccccaaga aggaggaggc taacgaacta
1201 gccatggtga gggccattga ggatgcagtc ctggatttgg aggcaataga aaacaatcac
1261 atgaccaccc ttctcaagga taaagacagc ctggccacat acatgaggac tcttgacttg
1321 gaagaagaga aagcaaggaa actgtcaacc aaatcggcgt cacctgacat cgtgggtaca
1381 ataaacgcat tattggctag gatagcagcc gccaggtcac tggtccacaa ggctaaggag
1441 gagctctcga gcagacagag acctgttgtt gtaatgatat caggtagacc aggtatagga
1501 aagacccatc tggccagaga gctagccaag aaagttgcgt caacactgtc aggcgatcaa
1561 aggattggac tggtacctag aaatggcgtc gaccattggg acgcctacaa gggagaaagg
1621 gtggttctgt gggatgatta tggtatgagc aaccctatac aggacgcact gaggctccaa
1681 gaattggctg acacctgtcc tctgacccta aattgtgata ggattgaaaa caaaggaaaa
1741 gtgttcgaca gtgatgccat aattataaca accaaccttg caaacccagc accactagac
1801 tatgtcaact ttgaggcctg ctctagacgc atagacttct tggtgtatgc agacgcacct
1861 gacattgaga aggctaagcg tgacttccct ggccaaccag atatgtggaa agaccatttc
1921 agatcagact tctcacacat taaacttcag ctggcaccac agggaggttt tgacaaaaat
1981 ggcaacaccc cacatggtaa aggtgtggtg aagtccctga cgattggttc cctgatcgcc
2041 agggcctccg gcttgctcca cgagagaatg gatgaattcg agctccaagg ctctgacctg
2101 ccaaccttca attttgaccg caacaaagtc gccgccttca gacaattagc agctgaaaac
2161 agatatggtc ttatggacac actgagggtc ggcaaccaac tgaaaagtgt taagaccctg
2221 gatgagctga agcaggccat aaagaacatc agtatcaaga agtgtcagat agtgtataat
2281 ggatgcacct ataccatgga atctgatggg aggggcaagg ttgtggttga aaaggtacaa
2341 aacgcaacag ttcaaaccaa caatgaactt gtaggggcgc tccaccacct gagatctgca
2401 aggataagat actacgttaa atgttttcaa gaagccattt actctctact ccaaattgct
2461 ggtgcagcct tcgtcacctc acgcatcgtg aggcgcatga acatatcaaa cctctggtcg
2521 aagccaccca tcgaggaggg tgatgagcct gaagacagag gaggatgccc caagcccagg
2581 gatgaagatg acctcactat tgactctaga gacattaaag tggaagggaa gaagggcaag
2641 aacaagtctg gccggggtaa gaaacacaca gccttctctt ccaagggcct cagtgatgaa
2701 gagtacgatg agtacaagag aatcagagag gagaggaatg gcaaatactc aatagaggaa
2761 tacctccaag atagggacag atactatgaa gagcttgcca ttgctaaggc cactgaggag
2821 gacttctgtg aggaggagga gatcaaaatc cgccagagaa tcttccgacc caccaggaag
2881 cagcggaaag aggaaagggc cacgcttggg cttgtcacag gatcggaaat cagaaagagg
2941 aatccagatg actttaaacc aaaaggaaaa ttgtgggctg atgacaacag gagcgtggat
3001 tacaatgaga ggatagattt tgaggccccc ccgagtgttt ggtctaggat agtcaacttt
3061 ggcacaggct ggggattctg ggtttctcca agtctcttca taacttcaac acacgtcata
3121 ccaaaaggaa tcactgaggc ctttggagtg cccataaacc aaatccaaat tcacaaatct
3181 ggagaatttt gccgcttgcg gtttccaaag ccaattagac cagacgtaag tgggatgatc
3241 ttggaagagg gcgcccctga aggcactgtt gtgtctattc tcatcaaaag gacaacaggg
3301 gagctgatgc ctcttgcagt cagaatgggg actcatgcca caatgaaaat ccaaggtaga
3361 acggtgggtg gtcagatggg tatgcttctc actggctcaa atgctaaaag catggatcta
3421 ggcacaacgc caggtgactg cggatgtcca tacatgtaca aaaggggcaa tgaccttgtg
3481 gtcattgggg tgcacactgc agcagctcgt ggaggcaaca cggtcatatg tgccacacag
3541 ggaagtgaag gtgaagccac tcttgaagga ggtgacaaca agggtaccta ttgtggagct
3601 cccattttgg gacctggcaa tgcaccaaaa ttgagcacaa agacaaaatt ctggagatcc
3661 tctaacgcac cgcttccccc aggtacttat gaaccagcat accttggtgg gagagacccg
3721 cgcgtgaagg gaggcccatc tctgcaacaa gttatgagag accaacttaa accttttaca
3781 gagcccagag ggaagccacc aaacccaaat gtcttagagt cagcaaagaa gactatcatc
3841 aatgttctgg aacaaaccat tgacccccct caaaagtggt catatgccca agcttgtgca
3901 tccctcgaca agacaacctc cagtggatac ccgcaccacg tccggaagaa tgactattgg
3961 agtggtgaat ccttcacagg aaaacttgca gatcaggctt caaaagcaaa tctcatgtat
4021 gaggaaggca agcatatgca accagtttac accgcagcac tcaaagacga gctcgtgaaa
4081 actgacaaaa tttatggcaa aatcaagaaa agactcctgt ggggttctga cctctccaca
4141 atgattcgat gcgccagagc atttggtggt ctcatggatg aattcaaagc aaattgtatt
4201 acactcccta tcagagttgg tatgaatatg aacgaagatg gtcccataat atttgagaaa
4261 cactccaggt acaggtacca ctatgatgct gattactccc gctgggactc cacacaacag
4321 cgggcagtgc tggaagcggc acttgaaatc atggtgagat tttctgctga gccacagctg
4381 gcacaaatag tggcagagga cctgctgtca ccaagtgtgg ttgatgtggg cgatttcaaa
4441 atcgctatca acgaaggcct accatctggc gtaccttgca cctcacaatg gaattctatt
4501 gcccactggt tacttacctt gtgtgccctt tctgaagtga caggattagg tcctgacatc
4561 atacaagcta actccatgta ctctttctat ggtgatgatg agattgtgag cacagacata
4621 aaattggacc cagagaaatt gaccgcaaag ctcaaagaat atggccttaa acccactcgg
4681 cccgacaaaa ctgaggggcc gttggtgatt agtgaggacc tgaatgggtt gactttcctc
4741 cgccgaacag tcacccgtga tccagcaggt tggtttggaa agttggacca aaactccatc
4801 ctcaggcagt tgtactggac aagaggaccc aaccatgaag accccagtga gaccatgata
4861 ccacatgcac aaagacctgt gcagctcatg gcactactag gggaatcctc cctacatgga
4921 ccctcatttt acagcaaggt tagcaaacta gtcatatctg aacttaaaga gggaggaatg
4981 gatttttatg tgcccagaca agagtcaatg ttcagatgga tgaggttctc agatctaagc
5041 acatgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgaatga
5101 cgccgctcca tctaatgatg gtgctgctgg tctcgtacca gagggcaaca acgagaccct
5161 tcccctagaa ccagttgcgg gcgcagctat agccgcaccc gtcactggcc aaaataacat
5221 aattgacccc tggattagaa caaattttgt gcaagcacca aatggagagt tcacagtgtc
5281 acccagaaac tctcctggag aaattttatt aaacttagag ttgggccctg atttgaaccc
5341 ttatttggct catttgtcaa ggatgtacaa tgggtatgct ggtggagtgg aagttcaggt
5401 tctcctggca gggaacgcgt tcactgccgg aaagatcctc ttcgccgccg tcccgccaaa
5461 tttcccagtg gaattcttaa gcccagccca gatcacaatg ctcccacatt taatagtaga
5521 tgttaggact cttgaaccaa ttatgatccc actccctgat gttaggaata cattcttcca
5581 ttatagtaac cagcctaata gccgcatgag attagtggct atgctctata ccccactcag
5641 atctaatggc tcaggtgatg atgtctttac tgtctcttgc agggttttga ctaggcccac
5701 tcctgatttt gagttcactt atttagtgcc accttctgtt gaatctaaaa ctaagccttt
5761 ttccttacct attttaaccc tttctgagct cacaaattcg aggttcccag tccccatcga
5821 ttcgcttttc accgcccaga ataatgtgtt gcaggtgcag tgtcaaaatg gcaggtgtac
5881 acttgatggt gagttacaag gcacaaccca gttgctccca tctggcatct gtgcattcag
5941 aggacgggtg acagcacaaa ttaaccaacg tgacaggtgg cacatgcaac tgcaaaacct
6001 caatggtaca acatatgacc caactgatga tgtgccagcc ccgctgggta cacctgactt
6061 caagggcgtc gtgtttggga tggtaagcca aagaaatgtg ggtagtgatg cgcctggctc
6121 aaccagagcc caacaggcgt gggtttcaac ctatagcccc caatttgtcc ccaaattagg
6181 ttctgttaat cttagaatta gtgataatga tgatttccaa ttccagccga caaaattcac
6241 accagtgggc gtcaatgatg acgatgatgg ccacccgttc aggcaatggg aactaccaaa
6301 ctattcaggg gagcttacct tgaatatgaa tcttgccccc ccagttgctc caaattttcc
6361 tggtgagcaa ttgttattct tcagatcttt cgtgccatgc tcaggaggtt acaaccaagg
6421 tattatagat tgtcttattc cccaagaatg gatccaacac ttctatcagg aatcagcacc
6481 ctcccagtca gacgtggccc taatcaggta tgtcaacccc gatacgggac gtacactgtt
6541 tgaagcaaaa ttgcacagat ctggttacat tactgtggct cactctggag actatcctct
6601 tgttgttccg gctaatggac actttagatt tgattcttgg gtaaatcagt tttactcact
6661 cgccccaatg ggaactggga atgggcgaag gagggctcag taatggctgg ggctttcatt
6721 gcaggattgg caggcgacat gctcacgtca tctgtgggct cccttgtgaa cgcaggggca
6781 aacgccatca accaaaagat agactttgaa aacaacaaac aactccagtc tgcttccttt
6841 cagcatgata aagagatgct ccaagcgcag gtgagggcaa ccaagcagct gcaatctgaa
6901 atgatagccc taaaacaggg ggttttggcc gcaggcggct tttcccccac tgatgcagca
6961 aggggatcca ttggtgcacc catgacaaag gtgcttgact ggtctggcac tcgatactgg
7021 gcgcccaatt ccacaaagac aactggctat tcgggacaat tcacctcttc acctgtgcat
7081 atgtctagcc caaatgctcc acaatcaaaa cctgcaaagc ctaggtctct agctccctcc
7141 tcttcttcta gcagtgtcta tagtatgtat actcaatcta ctcatataac atctggcttt
7201 tctagtaatg cttcttctgc ctccacaaaa ttgacaaatt taagctctgg ctcctctcaa
7261 aacagaacag cagagtgggt aaatcaacag agaagtctta gccctttcat gagtggcgca
7321 cttaacatct cacatgtcac gccaccctca agtagggctt ccagttctgg gacggtctcg
7381 accgtgccca aggaagtttt ggactcctgg acgtctgcgt ttaacacaca cagacagccg
7441 cttttcgcac acctcagagt gaggggggag tcacgtgttt agtgaaaaga aataattggc
7501 tataatgtga tttctttcta aatttggcta atttgtatct tttaaaaa
//