Typing tool
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Typing tool
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Complete norovirus genomes
| MH218625 | GII.4 | |
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| GII.P31 |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS MH218625 7560 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_154_02_03_2015, complete genome.
ACCESSION MH218625
VERSION MH218625.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7560)
AUTHORS Brown,J.R., Roy,S., Shah,D., Williams,C.A., Williams,R., Dunn,H.,
Hartley,J., Harris,K. and Breuer,J.
TITLE Norovirus transmission dynamics in a paediatric hospital using full
genome sequences
JOURNAL Clin. Infect. Dis. (2018) In press
PUBMED 29800111
REMARK Publication Status: Available-Online prior to print
REFERENCE 2 (bases 1 to 7560)
AUTHORS Brown,J.R., Roy,S., Shah,D., Williams,C.A., Williams,R., Dunn,H.,
Hartley,J., Harris,K. and Breuer,J.
TITLE Direct Submission
JOURNAL Submitted (17-APR-2018) Division of Infection and Immunity,
University College London, 90 Gower St, London, London WC1E 6BT,
United Kingdom
COMMENT ##Assembly-Data-START##
Assembly Method :: CLC Genomics Workbench v. 10.1
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7560
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_154_02_03_2015"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="02-Mar-2015"
/note="genotype: GII.Pe_GII.4"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17533.1"
/translation="MKMASNDASAAAVANSNNDIAKSSSDGVLSNMAVTFKRALGARP
KQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPE
ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS
LAKVELIPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KREETNELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTM
SDLKQALKNIAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTNKDGC
LKPKDDEEFVVSSDDVKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVILQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 5..994
/gene="ORF1"
/product="p48"
mat_peptide 995..2092
/gene="ORF1"
/product="NTPase"
mat_peptide 2093..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..6707
/gene="ORF2"
CDS 5085..6707
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="AWR17534.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDLEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6707..7513
/gene="ORF3"
CDS 6707..7513
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17535.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTITYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSTAISVYSNQTTSTRLGSTAGSGTSVSSLPPAARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLNSWTGAFNTHRQPLFAHIRKRGESRA"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga
61 catcgcaaaa tcttcaagtg acggtgtgct ttctaacatg gctgtcactt ttaagcgggc
121 cctcggggcg cggcctaaac agccgccccc gaaggaaata ccacccagac ccccgcgacc
181 acccacacca gaattggtca aaaagatccc tcctccccca cccaacgggg aggatgaact
241 agtggtctct tacagcgcca aagatggcgt ttccgggctg cctgagctca ccactgtcag
301 acaaccggaa gaaaccaaca cggcgttcag tgtcccccca ctcaaccaaa gggagagcag
361 ggacgccaag gagccactaa ctggaacaat tattgaaatg tgggatggag aaatctacca
421 ttacggcctg tacgtggaac gaggtcttat acttggtgtg cacaagccac cggcagccat
481 cagccttgcc aaggtcgagc taataccgct ctctttgttc tggagacctg tatacacccc
541 ccaatacctc atctctccag acactcttag gagactacat ggagagtcat tcccctacac
601 tgcatttgac aacaattgct acgccttttg ttgttgggtg ttagacctaa atgactcatg
661 gctaagcagg agaatgattc agagaacaac aggtttcttc aggccgtacc aggattggaa
721 caggaaaccc ctccccacta tggacgattc caaattaaag aaggtagcca acatattctt
781 gtgcactttg tcttcactat tcaccagacc catcaaggac ataataggga agttgaagcc
841 tcttaacatc cttaacattc tggctacatg tgattggacc ttcgcaggca tagtggaatc
901 cttaatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gatcgccccc ttgctaggtg attatgaact gcaaggacct gaggaccttg cagtggaact
1021 ggtcccagta gtgatggggg ggataggtct ggtgctagga tttaccaaag agaaaattgg
1081 aaagatgcta tcatccgctg catccacttt aagagcttgt aaagatcttg gtgcatacgg
1141 actggaaatc ttgaaattgg tcatgaagtg gttctttcca aagagagagg aaacaaatga
1201 actggctatg gtgagatcca tcgaggatgc agtgctagac ctcgaggcaa ttgagaacaa
1261 ccacatgacc accctactca aagacaaaga cagcttggca acctacatga gaacccttga
1321 ccttgaggag gagaaagcca gaaaactctc aaccaaatcc gcttcacccg atattgtggg
1381 cacaattaac tctcttctgg caagaatcgc tgctgcacgc tccctagtgc atcgggcaaa
1441 agaagagctc tccagcaggc cgagacctgt cgttgtgatg atatcgggaa gaccagggat
1501 agggaaaact caccttgcca gggagctggc caagaagatc gcggcctccc tcacagggga
1561 ccagcgtgtg ggtcttatcc cgcgcaatgg cgtcgaccac tgggacgcat acaagggcga
1621 aagagttgtc ctatgggacg attatgggat gagcaacccc atccatgatg ccctcaggtt
1681 gcaggagctt gctgacactt gccccctcac gctaaattgt gacagaattg aaaacaaagg
1741 gaaagtcttt gacagtgatg ccataattat caccaccaac ctggccaacc cagcaccact
1801 ggattatgtc aactttgaag cgtgctcgag acgcattgac ttcctcgtgt acgcagaagc
1861 ccctgaagtg gaaaaggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc
1921 tttcagccct gacttctcac acataaaact atcattggct ccacagggtg gttttgacaa
1981 gaacggcaac accccgcatg gaaaaggggt catgaagacc ctcaccactg gttccctcat
2041 cgcccgagcg tcagggttac tccatgagag actagatgaa tatgaactgc aaggcccagc
2101 cctcaccact ttcaactttg accgtaacaa gatacttgct tttagacagc ttgctgctga
2161 aaacaagtac gggctgatgg acacaatgag agttggaaaa cagctcaagg atgtcaagac
2221 catgtcagac ctcaaacaag cactcaagaa catcgcgatc aagaagtgcc agatagtgta
2281 taatggtagc acctacacac ttgaggccga tggcaagggt agtgtgaaag ttgacaaagt
2341 gcaaagtgcc actgtgcaga ccaacaatga gctagccggt gccctacacc acctaaggtg
2401 cgctagaatc agatactatg ttaagtgcgt ccaggaggca ctgtattcta tcatccaaat
2461 cgctggggct gcatttgtta ccacgcgcat cgctaagcgc atgaacatac agaatctctg
2521 gtccaagcca caggtggaag acacagaaga gatgaccaac aaagatggtt gcctaaaacc
2581 taaagatgat gaagagtttg tcgtctcatc cgacgacgtc aaaactgagg gcaagaaagg
2641 gaagaacaag tccggccgtg gcaagaagca cacagccttt tcaagcaaag ggcttagtga
2701 tgaggagtac gatgagtaca agagaatcag agaggaaagg aatggtaagt actccataga
2761 agagtacctt caggacagag acaggtacta cgaggaggtg gccattgcca gggcaaccga
2821 agaagacttc tgtgaagaag aagaggccaa aatccggcag aggatcttta gaccaacaag
2881 gaaacaacgc aaagaagaga gggcctctct cggcttggtc acaggttctg aaatcaggaa
2941 gagaaaccca gaagacttca aacccaaggg aaagctgtgg gctgatgatg acagaagtgt
3001 tgactacaat gagaaactca actttgaggc cccaccaagc atctggtcgc ggatagtcaa
3061 ctttggttca ggttggggct tctgggtctc ccccagtctg tttataacat caacccatgt
3121 catactccaa ggtgcaaaag agttcttcgg ggtccctatc aagcaaattc aaatacacaa
3181 atcaggtgaa ttctgccggt tgagattccc aaagccaatc agaactgatg tgacgggcat
3241 gattctagaa gaaggtgcgc ccgaggggac cgtggccaca ctgctcatca aaaggccaac
3301 tggagagctt atgcctctgg cagtcagaat ggggacccat gcaaccatga aaattcaggg
3361 gcgcacagtt ggagggcaaa tgggtatgct cctgacagga tccaacgcca agagcatgga
3421 cctaggcaca acaccaggcg actgcggctg cccctacatc tacaagaggg gaaatgacta
3481 cgtggtcata ggagtccata cggccgctgc ccgtggagga aacactgtca tatgtgccac
3541 ccaggggagt gagggagaag ccacacttga aggaggagac agtaaaggga catactgtgg
3601 cgcaccaatc ttgggcccag ggagcgctcc gaagctcagt accaagacta agttttggag
3661 atcatccaca acaccactcc cacctggcac ctatgaacca gcctacctcg gtggcaaaga
3721 ccccagagtc aaaggtggcc cttcattaca acaagttatg agggaccagc taaaaccatt
3781 cacagaaccc agaggcaaac caccaagacc aaatgtgttg gaagctgcca agaaaaccat
3841 catcaacgtc cttgagcaaa caattgatcc accccaaaaa tggtcatttg cgcaagcttg
3901 cgcatccctt gacaaaacca cctccagcgg ccacccgcac cacatgcgga aaaacgattg
3961 ttggaacggg gagtccttca caggaaaatt ggctgatcaa gcctctaagg ccaacctaat
4021 gtttgaagag ggaaagaaca tgactccagt ctacacaggt gcacttaaag atgagttggt
4081 aaagaccgac aaagtttatg gtaagatcaa gaagaggctt ctgtggggtt cagatctggc
4141 gaccatgata cggtgcgccc gagcttttgg aggccttatg gacgaactca aggcacactg
4201 tgtcacactt cccgtcagag ttggtatgaa catgaatgag gatggcccca tcatctttga
4261 gaagcactcc agatacagat atcactatga tgctgattat tcccggtggg actcaacaca
4321 acaaagggat gtactagcag cagcactaga aatcatggtt aagttctctc cagaaccaca
4381 cctggcccag atagttgcag aagacctcct ttcccctagc gtgatggatg taggtgactt
4441 tcaaatatca ataagtgagg gtctcccctc tggggtacct tgtacctccc agtggaattc
4501 catcgcccac tggctcctca ctctctgtgc actctctgaa gtcacagact tgtcccctga
4561 catcattcag gccaactccc ttttctcctt ctatggtgat gatgagattg taagcacaga
4621 cataaagttg gacccagaga agctgacagc aaaactcaag gagtacgggc tgaaaccaac
4681 ccgccccgat aaaactgaag gaccccttgt tatctctgag gacttggatg gcctgacatt
4741 cctccggagg actgtgaccc gtgatccagc tggttggttt ggaaaattgg aacaaagttc
4801 aattctcagg caaatgtact ggaccagggg tcccaaccat gaagatccat ccgaaacaat
4861 gataccacac tcccaaagac ccatacaatt gatgtccttg ctaggcgagg ctgcactcca
4921 cggcccggca ttttatagca aaattagcaa attagtcatt gcagagttga aggaaggtgg
4981 catggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg
5161 tcatggctct ggagcccgtt gtaggtgccg ccattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaacaatt ttgtgcaagc ccctggtgga gagtttacag
5281 tatcccctag gaacgctcca ggtgaaatac tatggagcgc gcccttaggc cctgatctaa
5341 atccctacct atcccatttg gccaggatgt acaatggtta tgcaggtggt tttgaagtgc
5401 aggttattct cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac
5461 caaattttcc aactgaaggc ttgagcccca gccaggtcac tatgtttccc catatagtag
5521 tagatgttag gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataatttct
5581 atcactacaa tcaatcaaat gatcccacca ttaagttgat agcaatgttg tatacaccac
5641 ttagggctaa taatgctggg gatgatgtct tcacagtttc ttgccgagtt ctcacgagac
5701 catcccctga ttttgatttc atatttctag tgccacctac agttgagtca agaactaaac
5761 cattctctgt cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctt
5821 tggaaaagtt gttcacgggg cccagcagtg cctttgttgt tcaaccacaa aacggcaggt
5881 gcacgactga tggcgtgctt ctaggcacca cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccat atcacaggta gtcacaacta cacaatgaat ttggcttctc
6001 aaaattggaa caattatgac ccaacagaag aaatcccagc ccctctagga actccagatt
6061 ttgtggggaa gattcaaggc gtgctcaccc aaaccacaag gacagatggc tcaacacgcg
6121 gccacaaagc tacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc
6181 agtttgaaac tgacacagat catgatcttg aagctaacca aaacacaaag ttcaccccag
6241 tcggtgttat ccaagatggt ggcaccaccc accgaaatga accccaacag tgggtgcttc
6301 caagttactc aggtagaaac acccataatg tgcatctggc ccccgctgta gctcccactt
6361 ttccgggtga gcaacttctc ttcttcagat ccacgatgcc cggatgcagc gggtacccca
6421 acatggattt ggactgtctg cttccccagg aatgggtgca gtacttctac caagaggcag
6481 ccccagcaca atctgacgtg gctctgctaa gatttgtgaa cccagacaca ggtagggttt
6541 tgtttgagtg taagcttcat aaatcaggtt atgttacagt ggctcacact ggccaacatg
6601 atttggttat cccccccaat ggttatttta gatttgattc ctgggtcaac cagttctaca
6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgt agtataatgg ctggagcttt
6721 ctttgctgga ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg
6781 ggctggggcc atcaatcaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc
6841 cttccaattt agcagcaatc tacaacaggc ttccttccaa catgataaag agatgctcca
6901 agcacaaatt gaggccacca agaagctaca acaggaaatg atgaaagtta agcaggcaat
6961 gctcctagag ggtgggttct ctgagacaga tgcagcccgt ggggcaatca acgcccccat
7021 gacaaaagct ttggactgga gcgggacaag gtactgggct cccgatgcta ggactataac
7081 atacaatgca ggccgctttt ccacccctca accatcgggg gcactgccag gaagagctaa
7141 tcttagggat gctgtccctg ctcggggttc ctccagcaaa tcttctaact cttctactgc
7201 tatttctgtg tactcaaatc aaactacttc aacgagactt ggttctacag ctggttctgg
7261 taccagtgtc tcgagtctcc cgccagctgc aaggactagg agttgggttg aggaccaaag
7321 taggaatttg tcacctttta tgaggggggc ccacaacata tcgtttgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagaggttt tgaactcctg
7441 gactggcgct ttcaacacgc acaggcagcc actcttcgct cacattcgta agcgagggga
7501 gtcacgggcg taatgtgaaa agacaaaatt gattatctct cttcttcttt aatgtctttt
//