Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MW305530 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P31 |
ORF1: 1..5069
ORF2: 5050..6672
ORF3: 6672..7478
LOCUS MW305530 7525 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate ONVHH1493 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305530
VERSION MW305530.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7525)
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JOURNAL Unpublished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 7525)
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..7525
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="ONVHH1493"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Peru"
/collection_date="07-Nov-2013"
/note="genotype: GII.4[GII.P31]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ58926.1"
/translation="AVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPPKEIPPR
PPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNTAFSVPPL
NQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVELTPLSL
FWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILNILA
TCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAASLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEKAKRDFPGQPDM
WKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEY
ELQGSALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMPDLKQALKNIA
IKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTNKDGCLKPKDDEEFVV
SSDDIRTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPE
DFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPT
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPRLSTKT
KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNVLE
AAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD
QASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAA
LEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK
TEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPFETMIP
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="QPJ58927.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRIQFETDTDHDFEANQNTKFTPVGVIQDG
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="QPJ58928.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 ccgctgttgc caacagcaac aacgacatcg caaaatcttc aagtgacggt gtgttttcta
61 acatggctgt cacttttaag cgggccctcg gggcgcggcc taaacagccg cccccgaagg
121 agataccacc cagacccccg cgaccaccca caccagaatt ggtcaaaaag atccctcctc
181 ccccacccaa cggggaggat gaactagtgg tctcttacag cgccaaagat ggcgtttccg
241 gactgcctga gctcaccact gtcagacaac cggaagaaac taacacggcg ttcagtgtcc
301 ccccactcaa ccaaagggag agcagggacg ccaaggagcc actaactgga acaattattg
361 aaatgtggga tggagaaatc taccattacg gcctgtacgt ggaacgaggt cttatacttg
421 gtgtgcacaa gccaccggca gccatcagcc tcgccaaggt cgagctaacg ccgctctctt
481 tgttctggag acctgtatac accccccagt atctcatctc tccagacact cttaggagat
541 tacatggaga gtcattcccc tacactgcat ttgacaacaa ttgctacgcc ttttgttgtt
601 gggtattaga cctaaacgac tcatggttaa gcaggagaat gattcagaga acaacaggtt
661 tcttcaggcc gtatcaggat tggaacagga aacccctccc cactatggat gattccaaat
721 taaagaaggt agccaacata ttcttgtgca ctttgtcttc actattcacc agacccatta
781 aggatataat agggaagttg aaacccctta acatccttaa 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 cgctgcatcc actttaagag
1081 cttgtaaaga ccttggtgca tacggactgg aaatcttaaa attggtcatg aagtggttct
1141 tcccaaagaa agaggaagca aatgaactgg ctatggtgag atccatcgag gatgcagtgc
1201 tagacctcga ggcaattgaa aacaaccaca tgaccaccct cctcaaggac aaagacagct
1261 tggcaaccta catgagaacc cttgaccttg aggaggagaa agccagaaaa ctctcaacca
1321 aatctgcttc acccgatatt gtgggcacaa tcaactctct tctggcaaga atcgctgctg
1381 cacgctccct agtgcatcgg gcgaaagaag agctctccag caggccgaga cctgtcgttg
1441 tgatgatatc gggaagacca gggataggga aaactcacct tgccagggag ctggccaaga
1501 agatcgcggc ctccctcaca ggggaccagc gtgtgggtct tatcccacgc aatggtgtcg
1561 atcactggga cgcatacaag ggcgaaagag ttgtcctatg ggacgactat ggaatgagca
1621 accccatcca tgatgccctc aggttgcagg agcttgctga cacttgcccc ctcacgctaa
1681 actgtgacag aattgagaac aaagggaaag tctttgacag tgatgccata attatcacca
1741 ccaatctggc caacccagca ccactggatt atgtcaactt tgaagcgtgt tcgagacgta
1801 ttgacttcct cgtgtacgca gaagcccctg atgtggagaa ggcaaagcgc gacttcccag
1861 gtcaacctga catgtggaag aacgctttca gtcctgactt ctcacacata aaactgtcat
1921 tggctccaca gggtggtttt gacaagaacg gcaacacccc gcatggaaaa ggggtcatga
1981 agaccctcac cactggctcc ctcatcgccc gagcatcagg gttactccat gagaggctag
2041 atgaatatga actgcaaggc tcagccctca ccactttcaa ctttgaccgc aacaagatac
2101 ttgcttttag acagcttgct gctgaaaaca agtatgggct gatggacaca atgagagttg
2161 gaaaacagct caaggatgtc aagactatgc cagacctcaa acaagcactc aagaacatcg
2221 cgatcaagaa gtgccagata gtgtacaatg gcagcaccta cacacttgag gccgatggca
2281 agggtagtgt gaaagttgac aaagtgcaaa gtgccactgt gcagaccaac aatgaactag
2341 ccggtgccct acaccacctc aggtgcgcta gaatcagata ctatgttaag tgcgtccagg
2401 aggcactgta ttccatcatc caaatcgctg gggctgcatt cgttaccacg cgcatcgcta
2461 agcgcatgaa tatacagaat ctctggtcca agccacaggt ggaagacaca gaagagatga
2521 ccaacaaaga tggttgccta aaacccaaag atgatgaaga gtttgtcgtc tcatccgacg
2581 acatcagaac tgagggcaag aaagggaaga acaagtccgg ccgtggcaag aagcacacag
2641 ccttttcaag caaagggctc agtgatgagg agtacgatga gtacaagaga atcagagaag
2701 aaaggaatgg taagtactcc atagaagagt accttcagga cagagacagg tactacgagg
2761 aggtggccat tgccagggca accgaagagg acttctgtga agaagaagag gccaaaatcc
2821 ggcagagaat ttttagacca acaaggaaac aacgcaaaga agagagggcc tctctcggct
2881 tggtcacagg ctctgaaatc aggaagagaa acccagaaga cttcaaaccc aagggaaagc
2941 tgtgggctga tgatgacaga agtgttgact acaatgagaa actcaacttt gaggccccac
3001 caagcatttg gtcgcggata gtcaactttg gttcaggctg gggcttctgg gtctcaccca
3061 gtctgtttat aacatcaacc catgtcatac cccaaggtgc aaaagagttc ttcggagtcc
3121 ctatcaagca aatccagata cacaaatcag gtgaattctg ccggttgaga ttcccaaagc
3181 caatcagaac tgatgtgacg ggcatgattc tagaagaagg tgcgcccgag gggaccgtgg
3241 ccacactgct catcaagaga ccaactggag agctcatgcc tctggcagcc agaatgggga
3301 cccatgcaac catgaaaatt caggggcgca cagttggagg gcaaatgggt atgctcctga
3361 caggatccaa cgccaagagt atggacctag gcacaacacc aggcgattgc ggctgcccct
3421 acatctacaa gagggggaat gactacgtag tcataggagt ccatacggcc gctgcccgtg
3481 gaggaaacac tgtcatatgt gccacccagg ggagtgaggg agaagccaca cttgaaggag
3541 gtgacagtaa agggacatac tgtggcgcac caatcttggg cccagggagc gctccgaggc
3601 tcagtaccaa gactaagttt tggagatcat ccacaacacc tctcccacct ggcacctacg
3661 aaccagccta cctcggtggc aaagacccca gagtcaaagg tggcccttca ttgcaacaag
3721 ttatgaggga ccagctaaag ccattcacag aacccagagg caaaccacca agaccaaatg
3781 tgttggaagc tgccaagaaa accatcatca atgtccttga gcaaacaatt gatccacccc
3841 aaaaatggtc atttgcgcaa gcttgcgcat cccttgacaa aaccacctcc agcggccacc
3901 cgcaccacat gcggaaaaac gactgttgga atggggagtc cttcacagga aaattggctg
3961 accaagcctc caaggccaac ctaatgtttg aagagggaaa gaacatgacc ccagtctaca
4021 caggtgcact taaagatgag ttggtaaaga ccgataaagt ttatggtaag atcaaaaaga
4081 ggcttctgtg gggttcagat ctggcgacca tgatacggtg cgcccgagct tttggaggcc
4141 ttatggatga actcaaggca cactgtgtca cacttcctgt cagagttggt atgaacatga
4201 atgaggatgg ccccatcatc tttgagaagc actccagata tagatatcat tacgatgctg
4261 attattcccg gtgggactca acacaacaaa gggatgtgct agcagcagca ctagaaatca
4321 tggttaagtt ctctccagaa ccacacctgg cccaggtagt tgcagaagac ctcctttccc
4381 ctagcgtaat ggatgtaggt gactttcaaa tatcaataag tgagggtctt ccctctgggg
4441 taccctgtac ctcccagtgg aattccatcg cccactggct cctcactctt tgtgcactct
4501 ctgaagtcac ggacctgtcc cctgacatca ttcaggccaa ctcccttttc tccttctatg
4561 gtgatgatga gattgtgagc acagacataa agttggaccc agagaagctg acggcaaaac
4621 tcaaggagta cgggctgaaa ccaactcgcc ccgacaaaac tgaaggaccc cttgttatct
4681 ctgaagacct ggatggcctg acattcctcc ggagaactgt gacccgtgat ccagctggct
4741 ggtttggaaa attggaacaa agttcaattc tcagacaaat gtactggacc aggggtccca
4801 accatgaaga cccatttgaa acaatgatac cgcactccca 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 tacagtgtcc cctagaaacg ctccaggtga aatactttgg
5281 agcgcgccct tgggccctga tctaaatcct tacctatccc atttggccag aatgtacaat
5341 ggttatgcag gtggttttga agtgcaggta attctcgcgg ggaacgcgtt caccgccggg
5401 aaggtcatat ttgcagcagt cccaccaaat tttccaactg aaggcttgag ccccagccag
5461 gtcactatgt tcccccatat agtagtagat gttaggcaac tagaacctgt gttgatcccc
5521 ttacccgatg ttaggaataa tttctatcat tataatcaat caaatgaccc caccattaag
5581 ttgatagcaa tgttgtatac accacttagg gctaataatg ctggggatga tgtcttcaca
5641 gtttcttgcc gagttctcac gagaccatcc cccgattttg atttcatatt tctagtacca
5701 cccacagttg agtcaagaac taaaccattc tctgtcccag ttttaactgt tgaggagatg
5761 accaattcaa gattccccat tcctttggaa aagctgttca cgggtcccag cagtgccttt
5821 gttgtccaac cacaaaacgg caggtgcacg actgatggcg tgctcctagg caccacccaa
5881 ctgtctcctg tcaacatctg caccttcaga ggagatgtca cccacatcac aggcagtcgt
5941 aactacacaa tgaatttggc ttctcaaaat tggaacaact atgacccaac agaagaaatc
6001 ccagcccctc taggaactcc agattttgtg gggaagattc aaggcgtgct cacccaaacc
6061 acaaggacag atggctcaac acgcggccac aaagccacag tgtacactgg gagcgccgac
6121 tttgctccaa aactgggtag aattcaattt gaaactgaca cagaccatga ttttgaagct
6181 aaccaaaaca caaagttcac cccagtcggt gtcatccaag atggtagcac tacccaccga
6241 aatgaacccc aacagtgggt gctcccaagt tactcaggca gaaatactca taatgtgcat
6301 ctggcccccg ctgtagcccc cactttcccg ggtgagcaac ttctcttctt cagatccacc
6361 atgcccggat gcagcgggta ccccaacatg gatttggact gcctgctccc ccaggaatgg
6421 gtgcagtact tctaccaaga ggcagcccca gcacaatctg atgtggctct gctaagattt
6481 gtgaatccag acacaggtag ggttttgttt gagtgtaagc ttcataaatc aggctatgtt
6541 acagtggctc acactggcca acatgatttg gttattcccc ccaatggcta ttttagattt
6601 gattcctggg tcaaccagtt ctacacgctt gcccccatgg gaaatggaac ggggcgtaga
6661 cgtgcagtat aatggctgga gctttctttg ctggattggc atctgatgtc cttggctctg
6721 gacttggttc ccttatcaat gctggggctg gggccatcaa ccaaaaagtt gagtttgaaa
6781 acaacagaaa attgcaacaa gcatccttcc aatttagcag caatctacaa caggcttcct
6841 ttcaacatga caaagagatg ctccaagcac aaattgaggc caccaaaaaa ttacaacagg
6901 aaatgatgaa agttaagcag gcaatgctcc tagagggtgg gttctctgag acggatgcag
6961 cccgcggggc aatcaacgcc cccatgacaa aagctttgga ctggagcggg acaagatact
7021 gggctcccga tgctaggact acaacataca atgcaggccg cttttccacc cctcaaccat
7081 caggggcact gccaggaaga gctaatctta gggatgctgt ccctgctcgg ggttcctcca
7141 gtaaatcttc taactcttct actgctactt ctgtgtactc aaatcaaacc acttcaacga
7201 gacttggttc tacagctggt tctggtacca gtgtctcgag cctcccgtca actgcaagga
7261 ctaggagctg ggttgaggat caaagtagga atttgtcacc tttcatgagg ggggcccaca
7321 atatatcgtt tgtcacccca ccatctagca gatcctctag ccaaggcaca gtctcaaccg
7381 tgcctaaaga ggttttggac tcctggactg gcgctttcaa cacgcgcagg cagccactct
7441 tcgctcacat tcgtaagcga ggggagtcac gggcgtaatg tgaaaagaca aaattgatta
7501 tctttctttt tctttagtgt ctttt
//