Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MW305624 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P31 |
ORF1: 1..5069
ORF2: 5050..6672
ORF3: 6672..7478
LOCUS MW305624 7521 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate Arg12908 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305624
VERSION MW305624.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7521)
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JOURNAL Unpublished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 7521)
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..7521
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Arg12908"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Argentina"
/collection_date="2014"
/note="genotype: GII.4[GII.P31]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59208.1"
/translation="AVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPPKEISPR
PPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNTAFSVPPL
NQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVELTPLSL
FWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILNILA
TCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAASLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM
WKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEY
ELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQALKNIA
IKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTNKDGCLKPKDDEEFVV
SSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPE
DFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAKEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPT
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT
KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNVLE
AAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD
QASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAA
LEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK
TEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPFDTMIP
HSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPSFVNEDGVE"
mat_peptide <1..959
/gene="ORF1"
/product="p48"
mat_peptide 960..2057
/gene="ORF1"
/product="NTPase"
mat_peptide 2058..2594
/gene="ORF1"
/product="p22"
mat_peptide 2595..2993
/gene="ORF1"
/product="VPg"
mat_peptide 2994..3536
/gene="ORF1"
/product="Pro"
mat_peptide 3537..5066
/gene="ORF1"
/product="RdRp"
gene 5050..6672
/gene="ORF2"
CDS 5050..6672
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59209.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVVFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6672..7478
/gene="ORF3"
CDS 6672..7478
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59210.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAILLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKTS
NSSTATSVHSNQTISTRLGSTAGSGASVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHVRKRGESRV"
ORIGIN
1 ccgctgttgc caacagcaac aacgacatcg caaaatcttc aagtgacggt gtgttttcta
61 acatggctgt cacttttaag cgggccctcg gggcgcggcc taaacagccg cccccgaagg
121 agatatcacc cagacccccg cgaccaccca caccagaatt ggtcaaaaag atccctcctc
181 ccccacccaa cggggaggat gaactggtgg tctcttacag cgccaaagat ggcgtttccg
241 gactgcctga gctcaccact gtcagacaac cggaagaaac caacacggcg tttagtgtcc
301 ccccactcaa ccaaagggag agtagagacg ccaaggagcc actaactgga acaattattg
361 aaatgtggga tggagaaatc taccattacg gcctgtacgt ggaacgaggt cttatacttg
421 gtgtgcacaa gccaccggca gccatcagcc ttgccaaggt cgaactaaca ccgctctctt
481 tgttctggag acctgtatac accccccagt atctcatctc tccagacact cttaggagat
541 tacatggaga gtcattcccc tacactgcat ttgacaacaa ttgctacgcc ttttgttgtt
601 gggtattaga tctaaacgac tcatggctaa gcaggagaat gattcagaga acaacaggtt
661 tcttcaggcc gtatcaggat tggaatagga aacccctccc cactatggat gattccaaat
721 taaagaaggt agccaacata ttcttgtgca ctttgtcttc actattcacc agacccatta
781 aggacataat agggaagttg aaacctctta acatcctaaa cattctggct acatgtgatt
841 ggaccttcgc aggcatagtg gaatctttaa tactcttagc agaactcttt ggagttttct
901 ggacaccccc agatgtgtct gcgatgatcg cccccttgct aggtgattat gaactgcaag
961 gacctgagga ccttgcagtg gaactggtcc caatagtgat gggggggata ggtttggtgc
1021 taggatttac caaagagaaa attggaaaga tgctatcatc cgccgcatcc actctaagag
1081 cttgtaaaga ccttggtgca tacggactgg aaattttaaa attggtcatg aagtggttct
1141 tcccaaagaa agaggaagca aatgaactgg ctatggtaag atccatcgaa gatgcagtgc
1201 tagacctcga ggcaatcgaa aacaaccaca tgaccaccct actcaaagac aaagacagct
1261 tggcaaccta catgagaacc cttgaccttg aggaggagaa agccagaaaa ctctcaacca
1321 aatctgcttc acccgatatt gtgggcacaa tcaactctct tctggcaaga atcgctgctg
1381 cacgctccct agtgcatcgg gcaaaagaag agctctccag caggccgaga cctgtcgttg
1441 tgatgatatc gggaaggcca gggataggga aaactcacct tgccagggag ctagccaaga
1501 agatcgcggc ctccctcaca ggggaccagc gtgtgggtct tatcccacgc aatggtgtcg
1561 atcactggga cgcatacaag ggtgaaagag ttgtcctatg ggacgactat ggaatgagca
1621 accccatcca tgatgctctc aggttgcagg agcttgctga cacttgcccc ctcacgctaa
1681 attgtgacag aattgagaac aaagggaaag tcttcgacag cgatgccata attatcacca
1741 ccaatctggc caacccagca ccactggatt atgtcaactt tgaagcgtgc tcgagacgta
1801 ttgacttcct cgtgtacgca gaagcccctg aggtggagaa ggcaaagcgc gacttcccgg
1861 gtcaacctga catgtggaag aacgctttca gtcctgactt ctcacacata aaactatcat
1921 tagctccaca gggtggtttt gacaagaacg gcaacacccc gcatggaaaa ggggtcatga
1981 agacactcac cactggctcc ctcatcgccc gagcatcagg gttactccat gagaggctag
2041 atgaatatga actacaaggc ccagccctca ccactttcaa ctttgaccgc aacaagatac
2101 ttgcttttag acagcttgct gctgaaaaca agtatgggct gatggacaca atgagagttg
2161 gaaaacagct caaggatgtc aagaccatgt cagacctcaa acaagcactc aaaaacatcg
2221 cgatcaagaa gtgccagata gtgtacaatg gtagtaccta cacacttgag gccgatggca
2281 agggtagtgt gaaagttgac aaagtgcaaa gcgccactgt gcagaccaac aacgaactag
2341 ccggtgccct acaccactta aggtgcgcta gaatcagata ctatgttaag tgtgtccagg
2401 aggcactgta ctccatcatc caaatcgctg gggctgcatt cgtcaccacg cgcatcgcta
2461 agcgcatgaa tatacagaat ctctggtcca agccacaggt ggaagacaca gaagagatga
2521 ccaacaaaga tggttgccta aaacccaaag atgatgaaga gtttgtcgtc tcatccgacg
2581 acatcaaaac tgagggcaag aaagggaaga acaagtccgg ccgtggcaag aagcacacag
2641 ccttttcaag caaagggcta agtgatgagg agtacgatga gtacaagaga atcagagaag
2701 aaaggaatgg taagtactcc atagaagagt accttcagga cagagacaag tactacgagg
2761 aggtggccat tgccagggca accgaagagg acttctgtga agaagaagag gccaaaatcc
2821 ggcagagaat tttcagacca acaaggaaac aacgcaaaga agagagggcc tctctcggct
2881 tggtcacagg ctctgaaatc aggaagagaa acccagaaga cttcaaaccc aagggaaagc
2941 tgtgggctga tgatgacaga agcgttgact acaatgagaa actcaacttt gaggccccac
3001 caagcatttg gtcgcggata gtcaactttg gttcaggctg gggcttctgg gtctccccca
3061 gtctgtttat aacatcaacc catgtcatac cccaaggtgc aaaagagttc ttcggagtct
3121 ctatcaagca aatccagata cacaaatcag gtgaattctg ccggttgaga ttcccaaagc
3181 caatcagaac tgatgttacg ggcatgattc tagaagaagg tgcgcccgag gggaccgtgg
3241 ccacactact catcaagaga ccaactggag agctcatgcc tctggcagcc agaatgggga
3301 cccatgcaac catgaaaatt caggggcgca cagttggagg gcaaatgggt atgctcctga
3361 caggatccaa cgccaagagt atggacctag gcacaacacc aggcgactgc ggctgcccct
3421 acatctacaa gagggggaat gactatgtgg tcataggagt ccatacggcc gctgcccgtg
3481 gaggaaacac tgttatatgt gccacccagg ggagtgaggg agaagccaca cttgaaggag
3541 gtgacagtaa agggacatac tgtggcgcac caatcttggg cccagggagc gctccgaagc
3601 tcagtaccaa gactaagttt tggagatcat ccacaacacc actcccacct ggcacctacg
3661 aaccagccta cctcggtggc aaagacccca gagtcaaagg tggcccttca ttgcagcaag
3721 ttatgaggga ccagctaaag ccattcacag aacccagagg caaaccacca agaccaaatg
3781 tgttggaagc tgccaagaaa accatcatca atgttcttga gcaaacaatc gatccgcccc
3841 aaaaatggtc atttgcgcaa gcttgcgcat cccttgacaa aaccacctcc agtggccacc
3901 cacaccacat gcggaaaaac gattgttgga atggggagtc tttcacagga aaattggctg
3961 atcaagcctc taaggccaac ctaatgtttg aagagggaaa gaacatgact ccagtctaca
4021 caggtgcact taaagatgag ttggtaaaga ccgataaagt ttatggtaag atcaagaaga
4081 ggcttctgtg gggttcagat ctggcgacca tgatacggtg cgcccgagct tttggaggcc
4141 ttatggatga actcaaggcg cactgtgtca cacttcctgt cagagtcggt atgaacatga
4201 atgaggatgg ccccatcatc tttgagaagc actccagata tagatatcac tatgatgctg
4261 attattcccg gtgggactct acacaacaaa gggatgtgct agcagcagca ctagaaatca
4321 tggttaagtt ctctccagaa ccacacctgg cccaggtagt tgcagaagac ctcctttccc
4381 ctagcgtaat ggatgtaggt gactttcaaa tatcaataag tgagggtctt ccctctgggg
4441 taccttgcac ctcccagtgg aattccatcg cccactggct cctcactctc tgtgcactct
4501 ctgaagtcac ggacctgtcc cctgacatca ttcaggccaa ctcccttttc tccttctatg
4561 gtgatgatga gattgtaagc acagacataa agttggaccc agagaagctg acagcaaaac
4621 tcaaggagta cgggctaaaa ccaacccgcc ccgacaaaac tgaaggaccc cttgttatct
4681 ctgaagacct ggatggcctg acattcctcc ggagaactgt gacccgtgat ccagctggct
4741 ggtttggaaa attggaacaa agttcaattc tcagacaaat gtactggacc aggggtccca
4801 accatgagga tccatttgac acaatgatac cacactccca aagacccata caattgatgt
4861 ccttgctggg cgaggctgca ctccacggcc cggcatttta tagcaaaatt agcaaattag
4921 tcattgcaga gttgaaggaa ggtggcatgg atttttacgt gcccagacaa gagccaatgt
4981 tcagatggat gagattctca gatctgagca cgtgggaggg cgatcgcaat ctggctccca
5041 gttttgtgaa tgaagatggc gtcgagtgac gccaacccat ctgatgggtc cgcagccaac
5101 ctcgtcccag aggtcaacaa tgaggttatg gctctggagc ccgttgttgg tgccgccatt
5161 gcggcacctg tagcgggcca acaaaatgta attgacccct ggattagaaa caattttgta
5221 caagcccctg gtggagagtt tacagtatcc cctagaaacg ctccaggtga aatactatgg
5281 agcgcgccct tgggccctga tctaaatccc tacctatccc atttggccag aatgtacaat
5341 ggttatgcag gtggttttga agtgcaggtg attctcgcgg ggaacgcgtt caccgcgggg
5401 aaagttgtat ttgcagcagt cccaccaaat tttccaactg aaggcttgag cccaagccag
5461 gtcactatgt tcccccatat agtagtagat gttaggcaac tagaacctgt gttgattccc
5521 ttgcccgatg ttaggaataa tttctatcat tacaatcaat caaatgatcc caccattaag
5581 ttgatagcaa tgttgtatac accacttagg gctaacaatg ctggggatga tgtcttcaca
5641 gtttcttgcc gagttctcac gagaccatcc cccgattttg atttcatatt tctagtgcca
5701 cccacagttg agtcaagaac taaaccattc tctgtcccag tcttaactgt tgaggagatg
5761 accaattcaa gattccccat tcctttggaa aagttgttca cgggtcccag cagtgccttt
5821 gttgtccaac cacaaaacgg caggtgcacg actgatggcg tgctcctagg caccactcaa
5881 ttgtctcctg tcaacatctg caccttcaga ggagatgtca cccatatcac aggtagtcgt
5941 aactacacaa tgaatttggc ttctcaaaat tggaacaatt atgacccaac agaagaaatc
6001 ccagcccctc taggaactcc agactttgtg gggaagattc aaggcgtgct cacccaaacc
6061 acaaggacag atggctcaac acgcggccac aaagccacag tgtacactgg gagcgccgac
6121 tttgctccaa aactgggtag agtccaattt gaaactgaca cagaccatga ttttgaagct
6181 aaccaaaaca caaagttcac cccagtcggt gtcatccaag atggtagcac cacccaccga
6241 aatgaacccc aacagtgggt gctcccaagt tactcaggca gaaatactca taatgtgcat
6301 ctggcccccg ctgtagcccc cacttttccg ggtgagcaac tcctcttctt cagatccacc
6361 atgcccggat gcagcgggta ccccaacatg gatttggact gcctgctccc ccaggaatgg
6421 gtgcagtact tctaccaaga ggcagcccca gcacaatctg atgtggctct gctaagattt
6481 gtgaatccag acacaggtag ggttttgttt gagtgcaagc ttcataaatc aggctatgtt
6541 acagtggctc acactggcca acatgatttg gttattcccc ccaatggtta ctttagattt
6601 gactcctggg tcaaccagtt ctacacgctt gcccccatgg gaaatggaac ggggcgtaga
6661 cgtgcagtat aatggctgga gctttctttg ctggattggc atctgatgtc cttggctctg
6721 gacttggttc ccttatcaat gctggggctg gggccatcaa ccaaaaagtt gagtttgaaa
6781 ataacagaaa attgcagcaa gcatccttcc aatttagtag caatctacaa caggcttcct
6841 ttcaacatga caaagagatg ctccaagcac aaattgaggc caccaaaaag ttacaacagg
6901 aaatgatgaa agttaagcag gcaatactcc tagagggtgg gttctctgag acagatgcag
6961 cccgcggggc aatcaacgcc cccatgacaa aagctttgga ctggagtggg acaaggtact
7021 gggctcccga tgctaggact acaacataca atgcaggccg cttctccacc cctcaaccat
7081 cgggggcact gccaggaaga gctaatctta gggatgctgt ccctgctcgg ggttcctcta
7141 gtaaaacttc taactcttct actgctacct ctgtgcactc aaatcaaact atttcaacga
7201 gacttggttc tacagctggt tctggtgcca gtgtctcgag cctcccgtca actgcaagga
7261 ctaggagctg ggttgaggat caaagtagga atttgtcacc tttcatgagg ggagcccaca
7321 atatatcgtt tgtcacccca ccatctagca gatcctctag ccaaggcaca gtctcaaccg
7381 tgcctaaaga gattttggac tcctggactg gcgctttcaa cacgcgcagg cagccactct
7441 tcgctcacgt tcgtaagcga ggggagtcac gggtgtaatg tgaaaagaca aaattgatta
7501 tctttctttt tctttagtgt c
//