Typing tool
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Typing tool
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Complete norovirus genomes
| MT238663 | GII.17 | |
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| GII.P17 |
ORF1: 1..5099
ORF2: 5080..6702
ORF3: 6702..7481
LOCUS MT238663 7543 bp RNA linear VRL 01-MAY-2020
DEFINITION Norovirus GII isolate 118-1 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MT238663
VERSION MT238663.1
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 7543)
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..7543
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="118-1"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="05-Dec-2015"
/note="genotype: GII.P17-GII.17"
gene <1..5099
/gene="ORF1"
CDS <1..5099
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QIQ09376.1"
/translation="SNDASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGARSKQP
PPGETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVVQPDA
QNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAISL
AKIEITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDLNDSW
LSRRMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDIIGKL
RPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDL
AVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWFFPK
KEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTK
SASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELA
KKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCP
LTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEKA
KRDFPGQPDMWKDHFRSDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIARAS
GLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENRYGLMDTLRVGNQLKSVKTLD
ELKQAIKNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALHHLRS
ARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDRGGCP
KPRDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVT
GSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSPS
LFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEGT
VVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDC
GCPYMYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGP
GNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKNDYWS
GESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGSDLS
TMIRCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDS
TQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKE
YGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRGPN
HEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQES
MFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..989
/gene="ORF1"
/product="p48"
mat_peptide 990..2087
/gene="ORF1"
/product="NTPase"
mat_peptide 2088..2624
/gene="ORF1"
/product="p22"
mat_peptide 2625..3023
/gene="ORF1"
/product="VPg"
mat_peptide 3024..3566
/gene="ORF1"
/product="Pro"
mat_peptide 3567..5096
/gene="ORF1"
/product="RdRp"
gene 5080..6702
/gene="ORF2"
CDS 5080..6702
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QIQ09377.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGSDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN
DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6702..7481
/gene="ORF3"
CDS 6702..7481
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QIQ09378.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSMYTQST
HITSGFSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 cgtctaacga cgcttccgct gccgttgctg gcaaaaacaa caacaacgac aaggaaaaat
61 cttcaagtga cagcctgttt gctaacatgt ctgtcacttt taagaaagcc ctcggggcgc
121 ggtctaaaca accgcccccg ggagaaacaa aacaaataca aaaaccacca aggccaccaa
181 caccggaatt ggtgaagaga atacctccac ccccacccaa tggcgaggat gaaccaggga
241 tagtgtacaa ggtgggagag ggtgtgtctg ggctgcccga cctaacaact gtggtacaac
301 ctgacgcaca aaacacagct tatagtgttc ccccacttag ccagagagaa gtcggcgaag
361 ctaaagaacc gctgcctggc tccattctgg aaatgtggga tggtgagatc taccactatg
421 ggctgtatgt tgagcggggg catgtgctcg gagtacacaa accacctgct gcaataagcc
481 ttgccaaaat tgaaataaca ccgctgtctc tctactggag agtggtctac actccccagt
541 atttgataga tccaggaact cttaagaact tgagtggaga gacttttcca tacacggcct
601 ttgacaacaa ctgttatgcc ttctgttgtt gggtcctaga cctcaacgac tcctggctta
661 gcaggagaat gatccaaagg acaactggat tcttcaaacc ttatcaggat tggaacagaa
721 aacccttacc aaccatggat gaaccgaaaa tcaagaaggc cgcgaatgct gtcctatgcg
781 ctctctcctc actcttcact agacccatta aggacatcat tggaaagctt agaccactga
841 acattcttaa tatactggca acctgcgatt ggacttttgc aggcatagtg gaatccttga
901 tccttcttgc tgaactcttt ggggtgttct ggacaccccc agatgtgtct gcgatgattg
961 ctcccttact cggtgactac gagatgcaag gccccgaaga cctggccgtg gaacttgtgc
1021 ccgtggtgat gggaggaata ggtttggtgt taggattcac caaagaaaag atcggcaaga
1081 tgctttcatc agctgcgacc acacttaggg cctgcaagga tctaggatct tatggattgg
1141 agatactcaa attggtcatg aagtggttct tccccaagaa ggaggaggct aacgaactag
1201 ccatggtgag ggccattgag gatgcagtcc tggatttgga ggcaatagaa aacaatcaca
1261 tgaccaccct tctcaaggat aaagacagcc tggccacata catgaggact cttgacttgg
1321 aagaagagaa agcaaggaaa ctgtcaacca aatcggcgtc acctgacatc gtgggtacaa
1381 taaacgcatt attggctagg atagcagccg ccaggtcact ggtccacaag gctaaggagg
1441 agctctcgag cagacagaga cctgttgttg taatgatatc aggtagacca ggtataggaa
1501 agacccatct ggccagagag ctagccaaga aagttgcgtc aacactgtca ggcgatcaaa
1561 ggattggact ggtacctaga aatggcgtcg accattggga cgcctacaag ggagaaaggg
1621 tggttctgtg ggatgattat ggtatgagca accctataca ggacgcactg aggctccaag
1681 aattggctga cacctgtcct ctgaccctaa attgtgatag gattgaaaac aaaggaaaag
1741 tgttcgacag tgatgccata attataacaa ccaaccttgc aaacccagca ccactagact
1801 atgtcaactt tgaggcctgc tctagacgca tagacttctt ggtgtatgca gacgcacctg
1861 acattgagaa ggctaagcgt gacttccctg gccaaccaga tatgtggaaa gaccatttca
1921 gatcagactt ctcacacatt aaacttcagc tggcaccaca gggaggtttt gacaaaaatg
1981 gcaacacccc acatggtaaa ggtgtggtga agtccctgac gattggttcc ctgatcgcca
2041 gggcctccgg cttgctccac gagagaatgg atgaattcga gctccaaggc tctgacctgc
2101 caaccttcaa ttttgaccgc aacaaagtcg ccgccttcag acaattagca gctgaaaaca
2161 gatatggtct tatggacaca ctgagggtcg gcaaccaact gaaaagtgtt aagaccctgg
2221 atgagctgaa gcaggccata aagaacatca gtatcaagaa gtgtcagata gtgtataatg
2281 gatgcaccta taccatggaa tctgatggga ggggcaaggt tgtggttgaa aaggtacaaa
2341 acgcaacagt tcaaaccaac aatgaacttg taggggcgct ccaccacctg agatctgcaa
2401 ggataagata ctacgttaaa tgttttcaag aagccattta ctctctactc caaattgctg
2461 gtgcagcctt cgtcacctca cgcatcgtga ggcgcatgaa catatcaaac ctctggtcga
2521 agccacccat cgaggagggt gatgagcctg aagacagagg aggatgcccc aagcccaggg
2581 atgaagatga cctcactatt gactctagag acattaaagt ggaagggaag aagggcaaga
2641 acaagtctgg ccggggtaag aaacacacag ccttctcttc caagggcctc agtgatgaag
2701 agtacgatga gtacaagaga atcagagagg agaggaatgg caaatactca atagaggaat
2761 acctccaaga tagggacaga tactatgaag agcttgccat tgctaaggcc actgaggagg
2821 acttctgtga ggaggaggag atcaaaatcc gccagagaat cttccgaccc accaggaagc
2881 agcggaaaga ggaaagggcc acgcttgggc ttgtcacagg atcggaaatc agaaagagga
2941 atccagatga ctttaaacca aaaggaaaat tgtgggctga tgacaacagg agcgtggatt
3001 acaatgagag gatagatttt gaggcccccc cgagtgtttg gtctaggata gtcaactttg
3061 gcacaggctg gggattctgg gtttctccaa gtctcttcat aacttcaaca cacgtcatac
3121 caaaaggaat cactgaggcc tttggagtgc ccataaacca aatccaaatt cacaaatctg
3181 gagaattttg ccgcttgcgg tttccaaagc caattagacc agacgtaagt gggatgatct
3241 tggaagaggg cgcccctgaa ggcactgttg tgtctattct catcaaaagg acaacagggg
3301 agctgatgcc tcttgcagtc agaatgggga ctcatgccac aatgaaaatc caaggtagaa
3361 cggtgggtgg tcagatgggt atgcttctca ctggctcaaa tgctaaaagc atggatctag
3421 gcacaacgcc aggtgactgc ggatgtccat acatgtacaa aaggggcaat gaccttgtgg
3481 tcattggggt gcacactgca gcagctcgtg gaggcaacac ggtcatatgt gccacacagg
3541 gaagtgaagg tgaagccact cttgaaggag gtgacaacaa gggtacctat tgtggagctc
3601 ccattttggg acctggcaat gcaccaaaat tgagcacaaa gacaaaattc tggagatcct
3661 ctaacgcacc gcttccccca ggtacttatg aaccagcata ccttggtggg agagacccgc
3721 gcgtgaaggg aggcccatct ctgcaacaag ttatgagaga ccaacttaaa ccttttacag
3781 agcccagagg gaagccacca aacccaaatg tcttagagtc agcaaagaag actatcatca
3841 atgttctgga acaaaccatt gacccccctc aaaagtggtc atatgcccaa gcttgtgcat
3901 ccctcgacaa gacaacctcc agtggatacc cgcaccacgt ccggaagaat gactattgga
3961 gtggtgaatc cttcacagga aaacttgcag atcaggcttc aaaagcaaat ctcatgtatg
4021 aggaaggcaa gcatatgcaa ccagtttaca ccgcagcact caaagacgag ctcgtgaaaa
4081 ctgacaaaat ttatggcaaa atcaagaaaa gactcctgtg gggttctgac ctctccacaa
4141 tgattcgatg cgccagagca tttggtggtc tcatggatga attcaaagca aattgtatta
4201 cactccctat cagagttggt atgaatatga acgaagatgg tcccataata tttgagaaac
4261 actccaggta caggtaccac tatgatgctg attactcccg ctgggactcc acacaacagc
4321 gggcagtgct ggaagcggca cttgaaatca tggtgagatt ttctgctgag ccacagctgg
4381 cacaaatagt ggcagaggac ctgctgtcac caagtgtggt tgatgtgggc gatttcaaaa
4441 tcgctatcaa cgaaggccta ccatctggcg taccttgcac ctcacaatgg aattctattg
4501 cccactggtt acttaccttg tgtgcccttt ctgaagtgac aggattaggt cctgacatca
4561 tacaagctaa ctccatgtac tctttctatg gtgatgatga gattgtgagc acagacataa
4621 aattggaccc agagaaattg accgcaaagc tcaaagaata tggccttaaa cccactcggc
4681 ccgacaaaac tgaggggccg ttggtgatta gtgaggacct gaatgggttg actttcctcc
4741 gccgaacagt cacccgtgat ccagcaggtt ggtttggaaa gttggaccaa aactccatcc
4801 tcaggcagtt gtactggaca agaggaccca accatgaaga ccccagtgag accatgatac
4861 cacatgcaca aagacctgtg cagctcatgg cactactagg ggaatcctcc ctacatggac
4921 cctcatttta cagcaaggtt agcaaactag tcatatctga acttaaagag ggaggaatgg
4981 atttttatgt gcccagacaa gagtcaatgt tcagatggat gaggttctca gatctaagca
5041 catgggaggg cgatcgcaat ctggctccca gttttgtgaa tgaagatggc gtcgaatgac
5101 gccgctccat ctaatgatgg tgctgctggt ctcgtaccag agggcaacaa cgagaccctt
5161 cccctagaac cagttgcggg cgcagctata gccgcacccg tcactggcca aaataacata
5221 attgacccct ggattagaac aaattttgtg caagcaccaa atggagagtt cacagtgtca
5281 cccagaaact ctcctggaga aattttatta aacttagagt tgggccctga tttgaaccct
5341 tatttggctc atttgtcaag gatgtacaat gggtatgctg gtggagtgga agttcaggtt
5401 ctcctggcag ggaacgcgtt cactgccgga aagatcctct tcgccgccgt cccgccaaat
5461 ttcccagtgg aattcttaag cccagcccag atcacaatgc tcccacattt aatagtagat
5521 gttaggactc ttgaaccaat tatgatccca ctccctgatg ttaggaatac attcttccat
5581 tatagtaacc agcctaatag ccgcatgaga ttagtggcta tgctctatac cccactcaga
5641 tctaatggct caggtgatga tgtctttact gtctcttgca gggttttgac taggcccact
5701 cctgattttg agttcactta tttagtgcca ccttctgttg aatctaaaac taagcctttt
5761 tccttaccta ttttaaccct ttctgagctc acaaattcga ggttcccagt ccccatcgat
5821 tcgcttttca ccgcccagaa taatgtgttg caggtgcagt gtcaaaatgg caggtgtaca
5881 cttgatggtg agttacaagg cacaacccag ttgctcccat ctggcatctg tgcattcaga
5941 ggacgggtga cagcacaaat taaccaacgt gacaggtggc acatgcaact gcaaaacctc
6001 aatggtacaa catatgaccc aactgatgat gtgccagccc cgctgggtac acctgacttc
6061 aagggcgtcg tgtttgggat ggtaagccaa agaaatgtgg gtagtgatgc gcctggctca
6121 accagagccc aacaggcgtg ggtttcaacc tatagccccc aatttgtccc caaattaggt
6181 tctgttaatc ttagaattag tgataatgat gatttccaat tccagccgac aaaattcaca
6241 ccagtgggcg tcaatgatga cgatgatggc cacccgttca ggcaatggga actaccaaac
6301 tattcagggg agcttacctt gaatatgaat cttgcccccc cagttgctcc aaattttcct
6361 ggtgagcaat tgttattctt cagatctttc gtgccatgct caggaggtta caaccaaggt
6421 attatagatt gtcttattcc ccaagaatgg atccaacact tctatcagga atcagcaccc
6481 tcccagtcag acgtggccct aatcaggtat gtcaaccccg atacgggacg tacactgttt
6541 gaagcaaaat tgcacagatc tggttacatt actgtggctc actctggaga ctatcctctt
6601 gttgttccgg ctaatggaca ctttagattt gattcttggg taaatcagtt ttactcactc
6661 gccccaatgg gaactgggaa tgggcgaagg agggctcagt aatggctggg gctttcattg
6721 caggattggc aggcgacatg ctcacgtcat ctgtgggctc ccttgtgaac gcaggggcaa
6781 acgccatcaa ccaaaagata gactttgaaa acaacaaaca actccagtct gcttcctttc
6841 agcatgataa agagatgctc caagcgcagg tgagggcaac caagcagctg caatctgaaa
6901 tgatagccct aaaacagggg gttttggccg caggcggctt ttcccccact gatgcagcaa
6961 ggggatccat tggtgcaccc atgacaaagg tgcttgactg gtctggcact cgatactggg
7021 cgcccaattc cacaaagaca actggctatt cgggacaatt cacctcttca cctgtgcata
7081 tgtctagccc aaatgctcca caatcaaaac ctgcaaagcc taggtctcta gctccctcct
7141 cttcttctag cagtgtctat agtatgtata ctcaatctac tcatataaca tctggctttt
7201 ctagtaatgc ttcttctgcc tccacaaaat tgacaaattt aagctctggc tcctctcaaa
7261 acagaacagc agagtgggta aatcaacaga gaagtcttag ccctttcatg agtggcgcac
7321 ttaacatctc acatgtcacg ccaccctcaa gtagggcttc cagttctggg acggtctcga
7381 ccgtgcccaa ggaagttttg gactcctgga cgtctgcgtt taacacacac agacagccgc
7441 ttttcgcaca cctcagagtg aggggggagt cacgtgttta gtgaaaagaa ataattggct
7501 ataatgtgat ttctttctaa atttggctaa tttgtatctt tta
//