Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MK752935 | GII.2 | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 5..5104
ORF2: 5085..6713
ORF3: 6713..7492
LOCUS MK752935 7536 bp RNA linear VRL 11-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2018/GII.P16-GII.2/Polk0461, complete
genome.
ACCESSION MK752935
VERSION MK752935.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7536)
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JOURNAL Unpublished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 7536)
AUTHORS Barclay,L., Cannon,J.L., Davis,T., Montmayeur,A.M., Tatusov,R.L.
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..7536
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Polk0461"
/isolate="Hu/US/2018/GII.P16-GII.2/Polk0461"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="21-Feb-2018"
/note="genotype: GII.P16-GII.2"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QBS47636.1"
/translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDKPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNTTIKRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH
LKHARIRYYVKCMQEAIYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE
APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEENFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYVYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPSQKWTYAQACASLDKTTSSGHPHHVRKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPDFVNEDGVE"
mat_peptide 5..1000
/gene="ORF1"
/product="p48"
mat_peptide 1001..2098
/gene="ORF1"
/product="NTPase"
mat_peptide 2099..2629
/gene="ORF1"
/product="p22"
mat_peptide 2630..3028
/gene="ORF1"
/product="VPg"
mat_peptide 3029..3571
/gene="ORF1"
/product="Pro"
mat_peptide 3572..5101
/gene="ORF1"
/product="RdRp"
gene 5085..6713
/gene="ORF2"
CDS 5085..6713
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBS47637.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVVGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPIENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6713..7492
/gene="ORF3"
CDS 6713..7492
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBS47638.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQQLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgctac cgttgccgtt gcttgcaaca acaacaacga
61 caaagaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc
121 cctcggggct aggcccaaac agcctgcccc gagagacaag ccacaaaagc ccccaagacc
181 accaactccc gagttggtca agaggatacc ccctcctcca cctaacggcg aagaagaaga
241 agagccagtc attaggtatg aggttaagag tgggatctct ggcctgcccg agctcacaac
301 agtcccccaa ccggacgtgg ccaacacagc attcagtgtt ccaccactga gcttgagaga
361 aaacagggag gccaaggagc cgctaacagg ggcaatatta gagatgtggg atggagagat
421 ataccattat ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc
481 agccataagc atggcaagag tggagctgac gccgttgtca ttgtactggc gtgtggtgta
541 cactccccaa tacctcatct cccctgaaac cctcaggagg ctcaacggag aggcattccc
601 ttacaccgcc tttgacaaca actgctacgc cttttgctgc tgggtgttag acctcaatga
661 ctcatggctt agcaggagga tggtacaaag aacaacgggc ttcttcagac cttaccaaga
721 gtggaacaga aaacccctac ctaccatgga tgactccaaa attaagaagg tagcaaatat
781 attcctatgt tcattgtcca cactattcac cagacccata aaagacctca taggaaaaat
841 taaaccattg aacatattga atatcctggc aacgtgtgac tggacttttg ccggaatagt
901 ggagtctctg atattacttg ctgaactctt cggagttttc tggacacccc cagatgtgtc
961 tgctatgatc gctcccttac tcggggacta cgagttgcaa gggccagaag acctcgccgt
1021 tgaactcgta cctgtggtaa tgggggggat tggtttggtg ttgggattca ccaaagagaa
1081 aattggcaaa atgttgtcct cagcagcatc aacactcagg gcttgcaaag atcttggtgc
1141 ctatggctta gagatactca aattggtcat gaagtggttc ttcccaaaga aagaggaggc
1201 caatgagcta gccatggtga gggccataga ggatgctgta ctagaccttg aggcaataga
1261 aaataaccac atgacaaccc tgttgaaaga caaagacagc ttagcaacat acatgaaaac
1321 actggacatg gaggaggaga aagccaggag gttgtccaca aaatctgcat cccctgacat
1381 agttgggaca atcaacgccc tgctggctcg aatagcagcg gccaggtcat tagtccacag
1441 ggccaaggaa gagctatcta gtaggataag gccagtagtt gttatgatat ctggcaaacc
1501 aggaataggc aaaactcatc tggccaggga ggtggcaaga aaggtggcat ccactctcac
1561 aggggatcaa agagtcggac tcataccacg aaacggtgtg gaccattggg atgcatacaa
1621 aggtgagaga gtcgtgctgt gggacgacta tggcatgagt aaccctattc atgatgctct
1681 tcgcatacaa gaattggctg atacgtgtcc ccttacctta aattgtgaca gaattgaaaa
1741 taagggaaaa gtttttgaca gtgaagtcat aataattaca acaaaccttg ccaatccagc
1801 cccacttgat tatgtcaact ttgaggcctg ttccaggaga attgattttc tggtgtacgc
1861 tgaggcacca gaagtggaaa aggcaaaacg ggactttcct ggtcagccag atatgtggaa
1921 ggacgccttc aagccggact tttcacacat caagctacag cttgcacccc agggcggctt
1981 tgacaagaat ggcaacaccc cacatgggaa aggagtgatg aagaccctca ctaccggttc
2041 tctgattgcc cgtgcatcag gcctactgca tgagaggatg gatgaatttg aactccaagg
2101 ccccacaatc accaccttca atttcgaccg aaacagaatc acggcattca gacaattggc
2161 tgcagaaaac aagtatggat tggtggatac catgaaagtt ggcaaccaat taaaaggagt
2221 gaaaaccatg gaagaactca aacaagcaat cagaaatacg accatcaaga ggtgccagat
2281 catctacggt ggttccacgt atgaccttga atctgatggc aagggcaaag ttttggtgga
2341 aaaagtcaag aacacctctg tacaaaccaa taacgagttg gctggggccc tgcaccatct
2401 caaacatgcc cgaatcaggt actatgtcaa atgtatgcaa gaagcaatct attccatcat
2461 acaaattgcc ggcgctgcgt ttgtcaccac gcgcattgca cgccgcatga acatacaaga
2521 actctggtcg aagccacaac tagatcaaaa tgaatcagag actaaggaag aggcccccaa
2581 gtcagaagat gacgagttca tcatatcttc taaggacatc aaggaggaag gaaagaaggg
2641 caaaaacaaa actggccgtg gcaagaaaca cactgcattc tccagcaagg gcttgagcga
2701 tgaggagtat gacgagtaca agaggataag agaagagaga aatgggaagt actctataga
2761 ggagtatctt caagacagag acaggtacta tgaggagctc gccattgcca aggccacgga
2821 agaaaacttc tgtgaggagg aggagatcaa aatccgtcag agaattttcc gtcccaccag
2881 gaaacaaaga aaggaagaga gggccacatt agggctagta acaggttcag agatcagaaa
2941 aagaaaccct gatgacttca aacccaaagg gaagctatgg gccgatgaca acaggagtgt
3001 tgactacaat gagaaactgg actttgaggc ccccccaagc atatggtcta ggattgtgag
3061 ctttggctct ggctggggct tctgggtgtc accaagcctt ttcataacat caactcatgt
3121 aatccccgca ggcataacag aagcatttgg agtccccatc aaacaaattc agatccacaa
3181 atcaggcgaa ttttgccgat tcagattccc aaaaccaatt agaccagatg tgacaggaat
3241 gatcttggaa gaaggtgcgc ctgagggcac cgtggcaact gtgctcatca aacgccccac
3301 cggagagctc atgcctcttg cagccagaat gggaacacac gcaaccatga aaattcaagg
3361 ccgcatggtt ggcggacaga tgggtatgtt gctcactgga tcaaatgcta aaggaatgga
3421 cttgggaaca actcctggtg actgtggctg tccttacgtc tataaaaggg gcaatgatta
3481 tatagtcatt ggggtgcaca ctgcagcagc ccgtggtgga aacactgtca tctgtgccac
3541 acagggaagt gagggcgagg caactcttga gggtggagat gacaaaggaa catactgtgg
3601 ggcacccatt ctaggccctg ggggtgcacc aaaattgagc accaaaacca aattttggag
3661 gtcatcgaac acgcccctcc caccagggac atatgagcct gcctacctcg gtggccgtga
3721 tccgcgtgtt aagggtgggc cttccctgca gcaggtgatg agagaccagt tgaagccatt
3781 cactgaaccc aggggcaaac ctccaagacc aagtgtattg gaagcagcca aacaaaccat
3841 catcaatgtc ctcgaacaaa ccctggaccc ttcacaaaaa tggacatacg cacaggcttg
3901 tgcctcactt gacaaaacca cctccagcgg gcacccccat cacgtccgaa agaatgaatt
3961 ctggaatggt gagaccttca ctggtaaact ggcagaccaa gcatcaaaag cgaacctaat
4021 gtttgaggaa gggaaacaca tgacaccagt gtacacagca gcactcaagg acgagctagt
4081 caagactgag aaaatctatg gaaagatcaa gaagagactg ctctggggct ctgacttgtc
4141 caccatgatc cggtgcgcta ggtcatttgg tgggcttatg gacgagatga aggcacactg
4201 catatcactc ccagtccgag ttggcatgaa catgaatgaa gatggcccaa taatatttga
4261 gaaacattcc agatacaaat atcactatga tgcagactac tctcgttggg attcaacaca
4321 acagagggca gttctagcag cagccttgga aatcatggtc agattctctg cagaaccaca
4381 attggcacaa atagtcgctg aggatctgct ggcccctagt gtagtagatg taggagactt
4441 taaaattaca ataaatgaag ggctcccttc tggtgtgcca tgcacttctc aatggaactc
4501 catcgcacac tggctgctaa ctctctgtgc cttgtctgaa gtcaccaaac tgtcccctga
4561 cattatacag gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagtactga
4621 cataaaattg gaccctgaac agttaaccgc caaactgaag gagtatggcc tgaaaccaac
4681 ccgcccagac aaaaccgagg gacccctgat tatcagtgaa gatttgaacg gtctcacttt
4741 cctccgaagg acggtgactc gtgacccagc tggctggttt ggaaaactgg accaaagctc
4801 aattttgagg cagatgtact ggactagagg accaaatcat gaagacccca atgagacaat
4861 gataccccat tcccaaagac ccatacagct catggcactg cttggtgaag cctctcttca
4921 cggaccctct ttctacagta aaatcagtaa attggtcata actgaactca aagaaggtgg
4981 gatggacttt tacgtgccaa ggcaggaacc catgttcagg tggatgaggt tttctgactt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccgatttt gtgaatgaag atggcgtcga
5101 atgacgccgc tccatctact gatggtgcag ccggcctcgt gccagaaagt aacaatgagg
5161 tcatggctct tgagcccgtg gttggtgccg ccttggcagc cccggtcacc ggtcaaacaa
5221 atattataga cccttggatt agagcaaatt ttgtccaggc ccccaatggt gaatttacag
5281 tctctccccg aaatgcccct ggtgaagtgc tactgaatct agagttgggt ccagaattaa
5341 atccttatct ggcacattta gcaagaatgt acaatgggta tgccggtggg atggaggtgc
5401 aggtcatgtt ggctgggaac gcgttcacag ctggcaagtt ggtcttcgcc gccgtgccac
5461 cccacttccc gattgaaaac cttagcccac agcaaatcac catgttccct catgtgatca
5521 tagatgtgag aaccttggaa cctgttttat taccactccc tgatgttagg aataacttct
5581 tccattataa tcagaaagat gatcccaaga tgagaattgt ggctatgctt tatacccccc
5641 tcaggtctaa tggttcaggt gatgatgtgt ttacagtctc ctgtagagtg ttgactagac
5701 cttcccctga ctttgacttc acatacctgg tgccaccaac agtggagtct aaaacaaagc
5761 cattcaccct cccaatcctc acacttgggg aactttccaa ttctaggttc ccagtgtcca
5821 tagaccagat gtacaccagc cccaatgaaa tcatatcagt gcagtgtcaa aatggtaggt
5881 gcacactgga cggggagctc caagggacaa cacaactcca agtcagtggc atttgtgctt
5941 tcaaaggtga ggtgaccgcc cacttgcatg acaatgatca cctatataat gtcaccatca
6001 caaacttgaa tgggtcccct tttgatccct ccgaggacat ccctgcccct ttgggtgtgc
6061 ctgacttcca gggaagggtt ttcggtatca tctcccaaag agacaaacac aatagtcctg
6121 ggcacaatga accagcaaac aggggacacg acgctgtggt ccctacttac acagcacagt
6181 acactccaaa acttggacaa attcaaattg gcacatggca aactgacgac cttacagtca
6241 accaaccagt caaattcacc ccagttgggc tcaatgacac tgaacacttt aaccaatggg
6301 tggtccctag gtatgctggt gccctaaacc tcaatacaaa ccttgcccct tctgttgctc
6361 cagtatttcc aggagagcgc ctgctcttct tcagatcata cattcccctc aagggcggtt
6421 atggaaaccc agccattgat tgcctactac cacaagaatg ggtgcagcac ttctatcagg
6481 aagcagcccc ttcaatgagt gaggtggccc tcgtcagata catcaacccg gacactggtc
6541 gggcactgtt tgaggccaag ctccacagag ctggtttcat gacagtctcg agcaacacca
6601 gtgccccggt ggttgtgcct gccaacgggt acttcagatt tgattcttgg gtgaaccaat
6661 tttattctct cgcccccatg ggaactggga atgggcgtag aagggttcaa taatggctgg
6721 agcttttgta gctggtcttg caggggatgt gctcagcaat gggcttagtt cattaatcaa
6781 tgcaggtgct aatgcaataa atcagagggc agaattcgat tttaatcaac aattgcagca
6841 aaattctttt aatcatgata aggagatgtt gcaggctcag attcaggcaa ctaagcagct
6901 gcaggcagac atgatggcta taaaacaagg ggtcttgacc gctggcggct tttcccctgc
6961 tgacgcagcc aggggtgctg taaacgcgcc catgacacag gcgctggatt ggaatggtac
7021 aaggtattgg gcaccaaact ccatgaggac cacatcttat tctggaaaat tcacatcaac
7081 cgccccagtg aggcaggctg acttccagca cacccaaagc cggccttcga gtggctcctc
7141 tgtgtcttcc tttgccaccc agtcttcaag gccaactttg accacaacca ctggttcctc
7201 acatggcaca gcctcatcaa attcaactcg cagcacaagc ctctcccaat caacggtctc
7261 cagagctaca tctaggactg gtgagtgggt tagagatcaa aatagaaatt tggaacccta
7321 catgcatggt gccttacaga cagcctttgt caccccacct tccagcaggg cgtctgacgg
7381 gacagtctca accgtcccta aaggtgtttt ggactcctgg acacctgcgt ttaacacccg
7441 caggcagccg ctttttgcac acctccgtaa gaggggggag tcacaagctt agtgaaaagg
7501 tgaaaatttg tttaggatta attgacttta ccgtgg
//