Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MK753021 | GII.2 | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 1..5028
ORF2: 5009..6637
ORF3: 6637..7391
LOCUS MK753021 7391 bp RNA linear VRL 11-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2018/GII.P16-GII.2/Oregon0431
nonstructural polyprotein (ORF1) gene, partial cds; VP1 (ORF2)
gene, complete cds; and VP2 (ORF3) gene, partial cds.
ACCESSION MK753021
VERSION MK753021.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7391)
AUTHORS Barclay,L., Cannon,J.L., Wikswo,M.E., Phillips,A., Browne,H.,
Montmayeur,A.M., Tatusov,R.L., Burke,R.M., Hall,A.J. and Vinje,J.
TITLE Emergence and characterization of multiple viruses associated with
a novel GII.P16 polymerase in the United States, 2015-2018
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7391)
AUTHORS Barclay,L., Cannon,J.L., Tsaknaridis,L.J., Montmayeur,A.M.,
Tatusov,R.L., Chhabra,P. and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (04-APR-2019) Division of Viral Diseases, Centers for
Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA
30329, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. R10; SPAdes v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7391
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Oregon0431"
/isolate="Hu/US/2018/GII.P16-GII.2/Oregon0431"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="08-Jan-2017"
/note="genotype: GII.P16-GII.2"
gene <1..5028
/gene="ORF1"
CDS <1..5028
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QBS47722.1"
/translation="GEGLFTNMSSTLKKALGARPKQPAPRDKPQKPPRPPTPELVKRI
PPPPPNGEEEEEPVIRYEIKSGVSGLPELTTVPQPDVANTAFSVPPLSLRENREAKEP
LTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAVSMARVELTPLSLYWRVVYTPQYL
ISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQRTTGFFRPYQEWNR
KPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLVGKIKPLNILNILATCDWTFAGIVE
SLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMGGIGLVLGFTKE
KIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRAIEDAVLDLE
AIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVGTINALLARIAAAR
SLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAREVARKVASTLTGDQRVGLIPRNGV
DHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRIENKGKVFDSEVII
ITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKDAFKPDFSH
IKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEFELQGPTITTFN
FDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQAIRNVTIKKCRIIYGGS
TYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARIRYYVKCVQEAVYSIIQIA
GAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKSEDDEFIISSKDIKEEGKKGK
NKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEELAIAKAT
EEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDFKPKGKLWADDN
RSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIPAGITEAFGVPIKQ
IQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPTGELMPLAARMGTH
ATMRIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGNDYIVIGVHTAAAR
GGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKTKFWRSSNTPLPPG
TYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLEAAKQTIINVLEQT
LDPPQKWTYAQACASLDKTTSSGHPYHVRKNEFWNGETFTGKLADQASKANLMFEEGK
HMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRCARSFGGLMDEMKAHCISL
PVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAALEIMVRFSAEPQL
AQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAHWLLTLCALSEVTKLSP
DIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPTRPDKTEGPLIISEDLNG
LTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNETMIPHSQRPIQLMALLG
EASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPNF
VNEDGVE"
mat_peptide <1..924
/gene="ORF1"
/product="p48"
mat_peptide 925..2022
/gene="ORF1"
/product="NTPase"
mat_peptide 2023..2553
/gene="ORF1"
/product="p22"
mat_peptide 2554..2952
/gene="ORF1"
/product="VPg"
mat_peptide 2953..3495
/gene="ORF1"
/product="Pro"
mat_peptide 3496..5025
/gene="ORF1"
/product="RdRp"
gene 5009..6637
/gene="ORF2"
CDS 5009..6637
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBS47723.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLSLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PIGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6637..>7391
/gene="ORF3"
CDS 6637..>7391
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBS47724.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTVSSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHPP"
ORIGIN
1 ggtgaaggct tattcacaaa tatgtcttcc accttaaaga aagccctcgg ggctaggccc
61 aaacagcctg ccccgagaga caaaccacaa aagcccccaa gaccaccaac tcccgagttg
121 gtcaagagga taccccctcc tccacctaat ggcgaagaag aagaagaacc agtcattagg
181 tatgagatta agagtggggt ctctggcctg cccgagctca caacagtccc ccaaccggac
241 gtggccaaca cagcattcag tgttccacca ctgagcttga gagaaaacag ggaggccaag
301 gaaccgctaa caggggcaat attagagatg tgggatggag agatatacca ttatggcctg
361 tacgtggaga aaggcttagt gttgggtgtg cacaaaccac ctgcagccgt aagcatggca
421 agagtggagc tgacgccgct gtcattgtac tggcgtgtgg tgtacactcc ccaatacctc
481 atctcccctg aaactctcag gagactcaac ggagaggcat tcccttacac cgcctttgac
541 aataactgct atgccttttg ctgctgggtg ttagacctca atgactcatg gcttagcagg
601 aggatggtgc aaagaacaac gggcttcttt agaccttacc aagagtggaa cagaaaaccc
661 ctgcccacca tggatgactc caaaattaag aaggtagcaa atatattcct atgctcattg
721 tccacattat tcaccagacc cataaaagac ctcgtaggaa aaattaaacc attaaacata
781 ttgaatatcc tggcaacgtg tgactggact tttgccggaa tagtggagtc tctgatatta
841 cttgctgaac tcttcggagt tttctggaca cccccagatg tgtctgctat gatcgctccc
901 ttactcgggg actacgagtt gcaggggcca gaagacctcg ccgttgaact cgtacccgtg
961 gtaatggggg ggattggatt ggtgttggga ttcaccaaag agaaaattgg caaaatgttg
1021 tcctcagcag catcaacact cagggcttgc aaagatcttg gtgcctatgg cttagagata
1081 ctcaaattgg tcatgaagtg gttcttccca aagaaagagg aggccaatga gctagccatg
1141 gtgagggcca tagaggatgc tgtactagat cttgaggcaa tagaaaataa ccacatgaca
1201 accctgttaa aagacaaaga cagcttagca acatacatga aaacactgga catggaggag
1261 gagaaagcca ggaggttgtc tacaaaatct gcatcccctg acatagttgg gacaatcaac
1321 gccctgctgg ctcgaatagc agcggccagg tcattagtcc acagggccaa ggaagagcta
1381 tctagcagga tgagaccagt agttgttatg atatctggca aaccaggaat aggcaaaact
1441 catctggcca gggaggtggc aagaaaggtg gcatccactc tcacagggga tcaaagagtc
1501 ggactcatac caagaaacgg tgtggaccat tgggatgcat acaaaggtga gagagtcgtg
1561 ctgtgggacg actatggcat gagtaacccc attcatgatg ctcttcgcat acaagaattg
1621 gctgatacgt gtccccttac cttaaattgt gacagaattg aaaataaggg aaaagttttt
1681 gacagcgagg tcataataat tacaacaaac cttgccaatc cagccccact tgattatgtt
1741 aactttgagg cctgttccag gagaattgat ttcctggtgt acgctgaggc accagaagta
1801 gaaaaggcaa aacgggactt tcctggtcag ccagatatgt ggaaggatgc cttcaagccc
1861 gacttttcac acatcaagct acagcttgca ccccagggcg gctttgacaa gaatggcaac
1921 accccacatg ggaaaggagt gatgaagacc ctcactaccg gttctctgat tgcccgtgca
1981 tcaggcctac tgcatgagag gatggatgaa tttgagctcc aaggtcccac aatcaccacc
2041 ttcaatttcg accggaacag aatcacagca ttcagacaat tggctgcaga aaacaagtat
2101 gggttggtgg ataccatgaa agttggcaat caactaaaag gagtgaaaac catggaggaa
2161 cttaaacaag caatcaggaa tgtgaccatc aagaagtgcc ggatcatcta cggtggctcc
2221 acgtatgacc ttgaatctga tggcaagggc aaagttttgg tggaaaaggt caagaacacc
2281 tctgtacaga ccaacaacga gttggctggg gccctgcacc atctcaaaca cgcccgaatc
2341 aggtactatg tcaaatgtgt gcaagaagca gtctattcca tcatacaaat tgccggcgct
2401 gcgtttgtca ccacgcgcat tgcacgccgc atgaacatac aagaactctg gtcgaagcca
2461 caattagatc aaaatgaatc agagactaag gaagaggccc ccaagtcaga agatgacgag
2521 ttcatcatat cttctaagga catcaaggag gaaggaaaga agggcaaaaa caaaactggc
2581 cgtggcaaga aacacactgc attctccagc aagggcttga gcgatgagga gtatgacgag
2641 tacaagagga taagagaaga gaggaatggg aagtactcca tagaggagta tcttcaagac
2701 agagacaggt actatgagga gctcgccatt gccaaggcca cggaagaaga cttctgtgaa
2761 gaagaggaga tcaaaatccg tcagagaatt ttccgtccca ccaggaaaca aagaaaggaa
2821 gagagggcca cattagggct agtaacaggt tcagaaatca gaaaaagaaa ccctgatgac
2881 ttcaaaccca aagggaagct gtgggctgat gacaacagga gtgttgacta caatgagaaa
2941 ctggactttg aggccccccc aagcatatgg tctaggattg tgagctttgg ttctggctgg
3001 ggcttctggg tgtcaccaag ccttttcata acatcaactc atgtaatccc cgcaggcata
3061 acagaagcat ttggagtccc catcaaacaa attcagatcc acaaatcagg tgaattttgc
3121 cgattcagat tcccaaaacc aattagacca gatgtaacag ggatgatctt ggaagaaggt
3181 gcgcctgagg gcaccgtggc aactgtgctc atcaaacgcc ccaccgggga gctcatgccc
3241 cttgcagcca gaatgggaac acacgcaacc atgagaattc aaggccgcat ggttggcgga
3301 cagatgggta tgttgctcac tggatcaaat gctaaaggaa tggatttggg aacaactcct
3361 ggtgattgtg gctgtcctta catctataaa agaggcaatg actatatagt cattggggtg
3421 cacactgcag cagcccgtgg tggaaacacc gtcatctgtg ccacacaggg aagtgagggt
3481 gaggcaactc ttgagggtgg agatgacaaa ggaacatact gtggggcacc cattctaggc
3541 cctgggggtg caccaaaatt gagcaccaaa accaaatttt ggaggtcatc gaacacgccc
3601 cttccaccag ggacatatga gcctgcctac ctcggtggcc gtgatccgcg tgttaagggt
3661 gggccctccc tgcagcaggt aatgagagac cagttgaagc cattcactga acccaggggc
3721 aaacctccaa gaccaagtgt attggaagca gccaaacaaa ccatcatcaa tgtcctcgaa
3781 caaaccctgg accctccaca aaaatggaca tacgcacagg cgtgtgcctc acttgacaaa
3841 accacctcca gcgggcatcc ctatcacgtc cgaaagaatg aattctggaa tggtgagacc
3901 ttcactggaa aattggcaga ccaagcatca aaagcaaacc taatgtttga ggaagggaaa
3961 cacatgacac cagtgtacac agcagcactc aaggacgagc tagtcaagac tgagaaaatc
4021 tatggaaaga tcaagaagag actgctctgg ggctctgact tgtccactat gatccggtgc
4081 gctaggtcat ttggtgggct catggacgag atgaaggcac actgcatatc actcccagtc
4141 cgagttggca tgaatatgaa tgaagatggc ccaataatat ttgagaaaca ttccagatac
4201 aaataccact atgatgcaga ctactctcgt tgggattcaa cacaacagag ggcagtacta
4261 gcagcagcct tggaaattat ggtcagattc tctgcagaac cacaattggc acaaatagtc
4321 gctgaggatc tgctggcccc tagtgtagta gatgtaggag acttcaaaat tacaataaat
4381 gaagggctcc cctctggtgt gccgtgcact tctcaatgga actccatcgc acactggctg
4441 ctaactctct gtgccttgtc tgaagtcacc aaactgtccc ctgacattat acaggcaaat
4501 tccatgttct cattttacgg tgatgacgag attgtcagca ccgacataaa attggaccct
4561 gaacagttaa ccgccaaatt gaaagagtac ggcctgaaac caacccgccc agacaaaacc
4621 gagggacccc tgattatcag tgaagatttg aacggactca ctttcctccg aaggacggtg
4681 actcgtgacc cagctggctg gtttggaaaa ctggaccaaa gctcaatttt gaggcagatg
4741 tactggacta gaggaccaaa tcatgaagac cccaatgaga caatgatacc ccattctcaa
4801 agacccatac agctcatggc actgcttggt gaagcctctc ttcacggacc ctctttctac
4861 agtaaaatca gtaaattggt cataactgaa ctcaaagaag gtgggatgga cttttacgtg
4921 ccaaggcagg aacccatgtt caggtggatg aggttttctg acttgagcac gtgggagggc
4981 gatcgcaatc tggctcccaa ctttgtgaat gaagatggcg tcgaatgacg ccgctccatc
5041 tactgatggt gcagccggcc tcgtgccaga aagtaacaat gaggtcatgg ctcttgaacc
5101 cgtggctggt gccgccttgg cagccccggt cactggtcaa acaaatatta tagacccttg
5161 gattagagca aattttgtcc aggcccccaa tggtgaattt acagtctctc cccgtaatgc
5221 ccctggtgaa gtgctactga gtctagagtt gggtccagaa ttaaatcctt atctggcaca
5281 tttagcaaga atgtacaatg ggtatgccgg tgggatggag gtgcaggtca tgttggctgg
5341 gaacgcgttc acagccggca agttggtctt cgccgccgtg ccacctcact tcccggttga
5401 aaaccttagc ccacagcaaa tcaccatgtt ccctcatgtg atcatagatg tgagaacctt
5461 ggaacctgtt ttattaccac tccctgatgt tagaaataat ttcttccatt ataatcagaa
5521 agatgatccc aagatgagaa ttgtggctat gctttatacc cctctcaggt ctaatggttc
5581 aggtgatgat gtgtttacag tctcctgcag agtgttgact agaccttccc ctgactttga
5641 cttcacatac ctggtgccac caacagtgga gtctaaaaca aaaccattca ccctcccaat
5701 cctcacactt ggggaacttt ccaattccag gttcccagtg tccatagacc agatgtatac
5761 cagccctaat gaagttatat cagtgcagtg tcaaaatggt aggtgcacac tggacgggga
5821 gctccagggg acaacacaac tccaagtcag tggcatttgt gctttcaaag gtgaagtgac
5881 cgcccacttg catgacaatg atcacctata taatgttacc atcacaaact tgaatgggtc
5941 cccttttgat ccctccgagg atatccctgc ccctctgggt gtgcctgact tccagggaag
6001 ggtttttggt atcatctccc aaagagacaa acacaatagt cctgggcata atgaaccagc
6061 aaacagggga cacgacgctg tggttcccac ttacacagca cagtacactc caaaactggg
6121 acaaattcaa attggcacat ggcagactga cgatcttaca gtcaaccaac cagtcaaatt
6181 caccccaatt ggactcaatg acactgaaca tttcaaccaa tgggtggtcc ctaggtatgc
6241 tggtgcccta aacctcaata caaaccttgc cccttctgtt gctccagtat ttccaggaga
6301 gcgtctgctc ttcttcagat catacattcc cctcaagggc ggttatggaa acccagccat
6361 tgattgccta ctaccacaag agtgggtgca acacttctat caggaagcag ccccttcaat
6421 gagtgaggtg gccctcgtca ggtacatcaa cccggacact ggtcgggcac tgtttgaggc
6481 caagctccac agagctggtt tcatgacagt ctcgagcaac accagtgccc cggtggttgt
6541 gcctgccaac ggatacttca gatttgattc ttgggtgaac caattctatt ctctcgcccc
6601 catgggaact gggaatgggc gtagaagggt tcaataatgg ctggagcttt tgtagctggt
6661 cttgcagggg atgtgctcag caatgggctt agttcattaa tcaatgcagg tgctaatgca
6721 ataaatcaga gggcagaatt tgattttaat cagaaattgc agcaaaattc ttttaatcat
6781 gataaggaga tgttgcaggc tcagattcag gcaactaagc agctgcaggc agacatgatg
6841 gctataaaac aaggggtctt gaccgctggc ggcttttccc ctgctgatgc agccagaggt
6901 gctgtgaacg cgcccatgac acaagcgctg gattggaatg gtacaaggta ttgggcacca
6961 aactccatga ggaccacatc ttactctgga aaattcacat caaccgcccc agtgaggcag
7021 gccgacttcc agcacaccca aagccggcct tcgagtggct cctctgtgtc ttcctttgcc
7081 actcagtctt caaggccaac tctgaccaca accactggtt cctcacatgg cacagtctca
7141 tcaaattcaa ctcgcagcac aagcctctcc caatcaacgg tctccagagc cacatctagg
7201 actggtgagt gggttagaga tcaaaataga aatttggaac cctacatgca tggtgcctta
7261 cagacagcct ttgtcacccc accttccagc agggcatctg acgggacagt ctcaaccgtc
7321 ccgaaaggtg ttttggactc ctggacacct gcgtttaaca cccgcaggca gccgcttttt
7381 gcacaccccc c
//