Typing tool
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Typing tool
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Complete norovirus genomes
| MW305714 | GII.13 | |
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| GII.P16 |
ORF1: 1..5066
ORF2: 5047..6675
ORF3: 6675..7406
LOCUS MW305714 7423 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate CMH-S155-12 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305714
VERSION MW305714.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7423)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Genome-wide analyses of human noroviruses reveal coexistence of
viral populations evolving under recombination constraints
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7423)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Direct Submission
JOURNAL Submitted (23-NOV-2020) CBER/OVRR/DVP/LHV, U.S. Food and Drug
Administration, 10903 New Hampshire Avenue, Silver Spring, MD
20993, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: High-performance Integrated Virtual
Environment (HIVE) v. 2
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7423
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="CMH-S155-12"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Thailand"
/collection_date="01-Dec-2012"
/note="genotype: GII.13[GII.P16]"
gene <1..5066
/gene="ORF1"
CDS <1..5066
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59478.1"
/translation="VACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRDNSQK
PPRPPTPELVKRIPPPPPNGEEEEPVIRYEVKSGISGLPELTTVPQPDVANTAFSVPP
LSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMAKVELTPLS
LYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLNRRMVQRT
TGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNILNIL
ATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVM
GGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLIMKWFFPKKEEANELAM
VRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVGT
INALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKVASTLTG
DQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRIE
NKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPD
MWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDE
FELQGPTVTTFNFDRNRIAAFRQLAAENKYGLVDTMRVGNQLKGVKTMEELKQAIKNV
IIKRCQIIYGGSTYDLESDGKGRVLVEKVKNTSVQTNNELAGALHHLKHARIRYYVKC
VQEAVYSIIQIAGAAFVTTRIVRRMNIQELWSKPPLDQNESEAKEEAPKSEDDEFIIS
SKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRD
RYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERVTLGLVTGSEIRKRNPDD
FKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIPA
GITEAFGVPIKQIQVHKSGEFCRFRFPKPIRSDVTGMILEEGAPEGTVATVLIKRPTG
ELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGND
YIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKTK
FWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLEA
AKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFTGKLADQ
TSKANLMFEEGKHMTPVYTAALKDELVKTDKVYGKIKKRLLWGSDLSTMIRCARSFGG
LMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAAL
EIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKISINEGLPSGVPCTSQWNSIAHWLLT
LCALSEVTKLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLKEYGLKPTRPDKT
EGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNETMIPH
SQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLS
TWEGDRNLAPNFVNEDGVE"
mat_peptide <1..962
/gene="ORF1"
/product="p48"
mat_peptide 963..2060
/gene="ORF1"
/product="NTPase"
mat_peptide 2061..2591
/gene="ORF1"
/product="p22"
mat_peptide 2592..2990
/gene="ORF1"
/product="VPg"
mat_peptide 2991..3533
/gene="ORF1"
/product="Pro"
mat_peptide 3534..5063
/gene="ORF1"
/product="RdRp"
gene 5047..6675
/gene="ORF2"
CDS 5047..6675
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59479.1"
/translation="MKMASNDAAPSNDGAASLVPEAINETMPLEPVAGASIAAPVAGQ
TNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAIPPNFPVDMISPAQITMLPHLIVDVRTLEPIMIPLPD
VRNVFYHFNNQPQPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFIYLVPP
SVESKTKPFTLPILTISELTNSRFPIPIEQLYTAPNENNVVQCQNGRCTLDGELQGTT
QLLSSAVCSYRGRTVANSGDNWDQNLLQLTYPSGASYDPTDEVPAPLGTQDFSGILYG
VLTQDNVSEGTGEAKNAKGVYISTTSGRFTPKIGTIGLHSITENVHPNQQSRFTPVGV
AQNENTPFQQWVLPHYAGALALNTNLAPAVAPTFPGEQLLFFRSRVPCVQGLRGQDAF
IDCLLPQEWVNHFYQEAAPSQADVALIRYVNPDTGRTLFEAKLHRSGFITVSHTGTYP
LVVPPNGHFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6675..7406
/gene="ORF3"
CDS 6675..7406
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59480.1"
/translation="MAGAFIAGLAGDMLTSAVGSLTSAGANAINQKLNFDYNKQLQNA
SFQHDKEMLQAQIDATKKLQSEMIAIKHGVLTAGGFSPADAARGAVNAPMTRVLDWSG
TRYYAPNSVQTTSYSGQFTPSPVHRAQVKSPSNSSQRTAAPSSIRSLSTQSTSLGSTS
SGGSSITSSSSRTADWVQQQRALSPYMQGALQTAYVTPPSSRASSMSSVSTVPKGVLD
SWTPVFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 ccgttgcttg caacaacaac aacgacaagg aaaaatcttc aggtgaaggc ttattcacaa
61 atatgtcttc caccttaaag aaagccctcg gggcccggcc caaacagcct gccccgaggg
121 acaactcaca aaagccccca agaccaccaa ctcccgagtt ggttaagagg ataccccctc
181 ccccacctaa tggagaagaa gaagaaccag tcattaggta tgaggttaag agtggaatct
241 ctggcctgcc cgagctcaca acagtccctc aaccggatgt ggccaacacg gcattcagtg
301 tcccaccgct gagcttgaga gaaaacaggg aggccaagga accgctgaca ggggcaatat
361 tagagatgtg ggatggagag atataccact atggcctgta cgtggagaaa ggcttagtgt
421 tgggtgtgca caaaccacct gcagctataa gcatggcaaa agtggagctg acgccgttgt
481 cattgtactg gcgtgtggtc tacacccccc aatacctcat ctcccctgaa actctcagga
541 ggctcaacgg agaggcattc ccttacactg cctttgacaa caactgctat gccttttgct
601 gctgggtatt agacctcaat gactcatggc ttaacaggag gatggtgcaa agaacaacag
661 gcttcttcag accttaccaa gagtggaaca gaaaacccct gcccactatg gatgactcca
721 aaatcaagaa ggtggcaaac atattcctgt gttcattgtc cacgttgttc accagaccta
781 taaaagacct cataggaaaa attaagccat taaacatctt gaacatcctg gcaacgtgtg
841 actggacatt cgccggaata gtggagtctc tgatattact tgctgaactc tttggagttt
901 tctggacacc cccagatgtg tctgctatga tcgctccttt acttggagac tacgagttgc
961 aagggccaga agaccttgcc gttgagctcg tacctgtagt aatgggaggg attggtttgg
1021 tgttgggatt caccaaagag aaaattggaa aaatgttgtc ctcagcagca tcaacgctca
1081 gggcttgtaa agatcttggt gcctatggct tagagatact caaattgatc atgaagtggt
1141 tcttcccaaa gaaagaagag gccaatgagc tagccatggt gagagctata gaggatgctg
1201 tattggatct tgaggcaata gaaaataatc acatgacaac tctgttgaaa gacaaagaca
1261 gcctagcaac ctacatgaaa acactagaca tggaggagga aaaagccaga agattgtcca
1321 caaaatctgc atcccctgac atagttggga cgatcaacgc cctgctggct cgtatagcag
1381 cggctaggtc actagtccac agggccaagg aggagttatc tagcagaata agaccagtgg
1441 ttgttatgat atctggcaaa ccagggatag gcaaaactca tttggccagg gaggtggcaa
1501 gaaaggtggc atccactctc acaggggatc aaagagtcgg gctcataccg aggaacggtg
1561 tggaccattg ggacgcatac aaaggtgaga gagtcgtgtt gtgggacgac tatggcatga
1621 gcaaccccat tcatgatgct ctgcgcatac aagaattggc tgatacgtgt ccccttacct
1681 taaattgtga cagaattgaa aataagggaa aagtttttga cagtgaagtc ataataatca
1741 caacaaacct tgccaatccg gctccacttg actatgtcaa ctttgaggcc tgttccagga
1801 gaattgactt tctggtgtac gctgaggcac cagaagtaga aaaggcaaaa cgagactttc
1861 ctggacaacc agatatgtgg aaggacgcct tcaagtcgga cttttcacac atcaagttgc
1921 aacttgcacc tcagggcggt tttgacaaga atggcaacac cccacatggg aaaggagtga
1981 tgaagaccct caccaccggt tccctgatcg cccgtgcatc aggcttactg catgagagga
2041 tggatgaatt tgaactccaa ggccccacag tcaccacctt caattttgac cggaacagaa
2101 tcgctgcatt cagacaattg gctgcagaaa acaagtatgg attggtggac accatgagag
2161 ttggcaatca attaaaaggg gtgaaaacta tggaagaact caaacaagca atcaagaatg
2221 tgatcatcaa gaggtgccag atcatctacg gcggctccac gtatgacctt gaatctgatg
2281 gcaagggcag agttctggtg gaaaaggtca agaacacctc tgtgcagacc aacaacgagt
2341 tggccggagc cctgcatcac ctcaaacatg cccgaatcag gtactatgtc aaatgtgtgc
2401 aagaagcagt ctactccatt atacaaatcg ccggcgctgc gtttgtcacc acacgcatag
2461 tacgccgcat gaacatacaa gagctttggt cgaagccacc attagatcaa aatgaatcag
2521 aggctaagga agaggccccc aagtcagaag atgacgagtt catcatatct tctaaggaca
2581 tcaaagagga aggaaagaag ggcaaaaaca aaactggccg tggtaagaaa catactgcat
2641 tctctagcaa gggcttgagc gatgaggagt atgacgagta caagaggata agggaagaga
2701 gaaatgggaa gtactctata gaggagtatc ttcaagacag agacaggtac tatgaggaac
2761 tcgccatcgc caaggccacg gaagaagact tctgtgagga ggaggagatc aaaatccgtc
2821 agaggatctt ccgtcccacc aggaagcaaa ggaaggaaga gagggtcaca ctagggctag
2881 taactggttc agaaatcaga aaaagaaacc ctgatgactt caaacctaaa gggaaactgt
2941 gggctgatga caacagaagt gttgactaca atgagaaact ggactttgag gcccccccaa
3001 gtatatggtc taggattgtg agttttggtt ctggttgggg cttctgggtg tcaccaagcc
3061 tgttcataac atcaactcat gtaatccctg caggcataac agaggcgttt ggagtcccca
3121 tcaaacaaat ccaggtccac aaatcaggtg aattttgccg gttcagattc ccaaaaccaa
3181 ttagatcaga tgtgacagga atgatcttgg aagaaggtgc gcctgagggc accgtggcaa
3241 ccgtgctcat caaacgccct accggagagc tcatgcccct tgcagccaga atgggaacac
3301 acgcgaccat gaaaattcag ggccgcatgg ttggcggaca gatgggtatg ttgctcactg
3361 gttcaaacgc taaaggaatg gatttgggaa caactcctgg tgattgtggc tgtccctaca
3421 tctacaaaag gggcaatgac tatatagtca ttggggtgca cacagcagca gcccgtggtg
3481 gaaacaccgt catctgtgcc acacagggaa gtgagggtga ggcaactctt gagggtggag
3541 atgacaaagg aacatactgt ggggcaccca ttctaggccc tgggggggca ccaaaattga
3601 gcaccaaaac caaattttgg aggtcatcga acacgcctct tccaccaggg acgtatgagc
3661 ctgcctacct cggtggccgt gacccgcgtg ttaagggtgg gccctccttg cagcaggtaa
3721 tgagagacca gttgaagcca ttcaccgagc ccaggggtaa acctccaaga ccaagtgtgt
3781 tggaagcagc caaacaaacc atcatcaatg tcctcgaaca aaccctggac cctccacaaa
3841 aatggacata cgcacaggcg tgtgcttcac ttgacaaaac cacctccagc gggcatcccc
3901 accacgtccg aaagaatgaa ttctggaatg gtgagacctt cactggtaaa ttggcagacc
3961 aaacatcaaa agcaaatcta atgtttgagg aagggaaaca catgacacca gtgtatacag
4021 cagccctcaa ggatgaactg gtcaagactg acaaagtcta tggaaagatc aagaagagac
4081 tgctctgggg ctctgacttg tccaccatga tccggtgcgc caggtccttt ggtggactca
4141 tggatgagat gaaagcacac tgcatatcac tcccagtccg agttggcatg aacatgaatg
4201 aagatggtcc aataatattt gagaagcact ccagatacaa gtatcactat gatgcagatt
4261 actcccgctg ggattcaaca caacagaggg cagtactagc agcagccttg gagatcatgg
4321 tcaggttctc tgcagagcca caattggcac aaatagtcgc tgaggatctg ctggccccca
4381 gtgtggtaga tgtaggagac tttaaaattt caataaatga agggctcccc tctggtgtac
4441 catgcacttc tcaatggaat tccatcgcac actggctgct aaccctctgc gccttgtctg
4501 aagtcaccaa actgtcccct gacattgtac aggcaaattc catgttctca ttttacggtg
4561 atgacgagat tgtcagcacc gatataaaat tggaccctga aaagttaacc accaaattga
4621 aggagtacgg cctgaaacca actcgcccag acaaaaccga gggacccctg atcatcagtg
4681 aggatctgaa cgggctcact ttcctccgga ggacggtgac tcgtgaccca gctggctggt
4741 ttggaaaatt ggaccaaagc tcaatattga ggcagatgta ctggactaga ggaccaaatc
4801 atgaagaccc caatgagaca atgatacccc actctcaaag acccatacag ctcatggcac
4861 tgcttggtga ggcctccctt cacggaccct ctttctacag caaaattagt aagttggtca
4921 taactgaact caaagaaggt gggatggact tttacgtgcc aaggcaggaa cccatgttca
4981 ggtggatgag gttttctgac ttgagcacgt gggagggcga tcgcaatctg gctcccaatt
5041 ttgtgaatga agatggcgtc gaatgacgcc gctccatcga atgatggtgc agctagtctc
5101 gtaccagagg ccattaatga gactatgcca ttggaacccg ttgctggcgc atctattgct
5161 gccccagtgg cgggacaaac taacataatt gacccctgga taagaacaaa ttttgtgcaa
5221 gcccctaatg gagagtttac agtatcaccg agaaattccc ctggagagat tctattaaat
5281 ttagagttag gaccagattt gaatccttat ttggcccatc tatcaaggat gtacaatgga
5341 tatgctggag gtgttgaggt gcaagtgctt cttgctggga acgcgttcac agcaggaaag
5401 atattgtttg cagcaatccc acccaacttt cctgtagata tgattagccc agctcaaatt
5461 actatgcttc cccatttgat tgtagatgtt aggacattgg aacctattat gataccctta
5521 cctgatgtta ggaatgtgtt ctatcatttt aataatcaac cccaacctag gatgagatta
5581 gtggctatgc tctatacccc attgagatct aatggttcag gagatgatgt ctttactgtg
5641 tcttgtagag tgttgactag gccaacccct gattttgaat tcatttacct ggtgcctccc
5701 tctgtagagt ccaaaactaa accattcaca cttccaatat tgaccatttc tgaactaacc
5761 aactcccggt ttcccatccc aattgagcaa ctgtacacgg ccccaaatga gaataatgtt
5821 gtacagtgtc aaaatggaag gtgcaccttg gatggagagc ttcagggcac cacccagctg
5881 ctatcaagtg cagtttgctc ttacaggggc aggactgtgg ctaacagtgg ggacaattgg
5941 gaccagaatt tgctccagct gacctaccca agcggtgcaa gctatgaccc cactgatgaa
6001 gtaccagcac ccttgggcac ccaagatttc agtgggatat tgtatggggt gttaacccaa
6061 gacaatgtaa gtgagggtac aggggaggcc aaaaatgcta agggagtata catatccacc
6121 accagtggaa gattcacccc aaaaattggg acaattggat tgcattcaat aactgaaaat
6181 gtgcacccca atcagcaatc acggttcacc cccgttggag tcgctcagaa tgaaaacacc
6241 cccttccagc aatgggttct accacactac gcaggtgctc tcgctctaaa caccaatttg
6301 gcacccgctg ttgccccgac cttccctggt gagcaattac tgttcttcag gtcccgtgtt
6361 ccatgtgttc aaggtctgcg ggggcaggat gctttcatag attgtctcct acctcaagag
6421 tgggtgaacc atttttatca agaggctgct ccctcccaag cagacgttgc cctcatcagg
6481 tacgtcaacc ctgatactgg tcgcacgctg tttgaggcca aattgcacag gtcaggtttc
6541 attactgtat cacacactgg cacttaccct cttgtggtcc ccccgaatgg tcatttcagg
6601 tttgattctt gggttaacca attctactca ctcgccccca tgggaactgg caatgggcgt
6661 agaagagttc aataatggca ggagcattta tagctggtct agccggtgac atgctgactt
6721 ctgctgttgg ttcactgacc tctgcaggag ccaatgccat caatcagaaa ttgaattttg
6781 attacaataa acaactccaa aatgcatcct ttcaacatga taaggaaatg ttgcaggccc
6841 aaattgatgc tacaaagaag ctccaatcag aaatgattgc aattaagcat ggggttttga
6901 ccgcaggcgg cttttcccca gctgatgcag ccagaggggc agtcaacgcc ccaatgactc
6961 gagtgttgga ttggtcaggg acacgctact acgctccaaa ttctgtgcaa accaccagtt
7021 attctgggca attcaccccc tcgccagtcc atcgggcgca ggtgaagtcc ccttccaatt
7081 catctcagcg gactgcagct ccaagcagta tccgcagcct gtcaacccaa tcaacttctt
7141 taggctccac ctcctcaggg gggtcctcta taacctcctc tagttcgagg acagcagact
7201 gggtgcaaca acaaagggct cttagcccgt acatgcaggg agccctgcaa acggcatacg
7261 tcacaccgcc gtctagtagg gcttccagta tgagctctgt ctcaacagtg cccaaagggg
7321 ttttggactc ctggacacct gtgttcaaca cacgcaggca gccgctgttt gcacacctca
7381 ggaagagggg ggagtcacag gcttagtgaa aaggataatc aac
//