Typing tool
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Typing tool
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Complete norovirus genomes
| MH218731 | GII.1 | |
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| GII.P33 |
ORF1: 5..5110
ORF2: 5091..6698
ORF3: 6698..7471
LOCUS MH218731 7498 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_92_31_01_2015, complete genome.
ACCESSION MH218731
VERSION MH218731.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7498)
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 7498)
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..7498
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_92_31_01_2015"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="31-Jan-2015"
/note="genotype: GII.Pg_GII.1"
gene 5..5110
/gene="ORF1"
CDS 5..5110
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17851.1"
/translation="MKMASNDASAAAAATSNNDIAKSSSDGVLSSMAVTFKRALGARP
KQPPPRETEQKQKPPRPPTPELIKKIPPPPPNGEDDIVVSYSAKDGISGLPELSTVRQ
PDGTNTAFSVPPLNQRENKDAKEPLPGTILEMWDGEIYHYGLYVERGLVLGVHKPPAA
ISLAKVELTPLSLYWRPVYTPQYLISPETLKKLHGETFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIVLCAMSSLFTRPIKDII
GKLRPLNMLNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLFMKWF
FPKKDEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDLEEEKARRL
STKSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLAR
DLAKKVAATLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELAD
TCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDV
EKAKRDFPGQPDMWKDAFRSDFSHIKLMLAPQGGFDKNGNTPHGRGVMKTLTSGSLIA
RASGLLHERLDEYELQGPTPTTFNFDQNKVFAFRRLAAENKYGLVDTMRVGSQLKNVK
TVSELKQALKNISIRRCQIVYGGLTYSLESDGKGNVRVEKVQSPAVQTNNELTGALHH
LRCARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSRPQVEDEEETTSKD
GCPKPKDEEEFVISSEDIKAEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREER
NGKYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLG
LVTGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWV
SPSLFITSTHVIPQGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAP
EGTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTP
GDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAVLEGGDNKGTYCGAPI
LGPGNAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFT
EPRGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTFAQACASLDKTTSSGYPHHVRKNE
HWNGESFTGKLADQASKANLMFEEGKHMTPVYTGALKDELVKTDKIYGKIKKRLLWGS
DLATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFGKHSRYTYHYDADYSR
WDSTQQRAVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFKISITEGLPSGVP
CTSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAK
LKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTR
GPNHEDPSETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPR
QEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 5..1000
/gene="ORF1"
/product="p48"
mat_peptide 1001..2098
/gene="ORF1"
/product="NTPase"
mat_peptide 2099..2635
/gene="ORF1"
/product="p22"
mat_peptide 2636..3034
/gene="ORF1"
/product="VPg"
mat_peptide 3035..3577
/gene="ORF1"
/product="Pro"
mat_peptide 3578..5107
/gene="ORF1"
/product="RdRp"
gene 5091..6698
/gene="ORF2"
CDS 5091..6698
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="AWR17852.1"
/translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ
NNVIDPWIRMNFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPFLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKLVFAAIPPHFPLENLSPGQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQQPEPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP
TVESKTKPFTLPILTIGELSNSRFPVPIDELYTSPNEGVVVQPQNGRSTLDGELLGTT
QLVPSNICALRGRINARVPDDHHQWNLQVTNANGTPFDPTEDVPAPLGTPDFLANIYG
VTSQRNPDNTCRAHDGVLATWSPKFTPKLGSVVLGTWEEHDLDLNQPTRFTPVGLYDT
NHFDQWILPNYSGRLTLNMNLAPSVAPLFPGEQILFFRSHIPLNGGTSNGAIDCLLPQ
EWIQHFYQESAPSPTDVALIRYTNPDTGRVLFEAKLHRQGFITVANSGSRPIVVPPNG
YFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6698..7471
/gene="ORF3"
CDS 6698..7471
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17853.1"
/translation="MAGAFVAGLAGDIITNSIGSLVNAGANAINQKVDFENNKQLQQA
SFNHDKEMLQAQIQATKQLQADMIALRQGVLTAGGFSPTDAARGAINAPMTQVLDWNG
TRYWAPGATKTTVFSGGFTSSPNTRTVDLPRKTSTTPAPTPISRPSSSASTVSTRSTI
VSGTSGLSSSTRSSFNSQPTSSSSRTSEWVRSQNRALEPYMRGALQTAYVTPPSSRAS
SNGTVSTVPKEVLDSWTSVFNTHRQPLFAHLRRRGESQV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgctacca gcaacaacga
61 catcgcaaaa tcttcaagtg acggagtact aagtagtatg gctgtcactt ttaaacgagc
121 cctcggggcc cggcctaaac agccgccccc gagggaaaca gaacaaaaac aaaaacctcc
181 acgaccgccc accccggagt taatcaaaaa gattccacct cccccgccca acggggagga
241 cgatatagtg gtatcctaca gtgccaaaga tggtatctcc ggtctgcctg agctatccac
301 cgtcaggcaa ccagatggga caaacacagc atttagtgtc cccccactca accagaggga
361 aaacaaagat gctaaagaac cgctgcctgg caccatcttg gaaatgtggg acggagagat
421 ttaccactac ggcttgtacg tggagcgggg cttggtgctt ggggtgcaca aaccaccagc
481 ggctattagc cttgcaaagg ttgaactaac accactgtct ctgtactgga gaccagtgta
541 cacccctcag tacctcatat ccccggaaac tctcaaaaag ctacatggag agacattccc
601 ttatacggcc tttgataaca actgttacgc cttttgttgt tgggtcttgg atctaaatga
661 ctcttggctc agcaggagga tgatacagag aacaactggc ttcttcagac cctaccagga
721 ctggaacagg aaacctctcc ccaccatgga tgattccaaa ttgaaaaagg tggctaatat
781 agtcctgtgt gcaatgtcat cactattcac caggcccatt aaggacataa taggaaaact
841 aaggccccta aacatgctca atatactagc ttcctgcgac tggacttttg caggaatagt
901 agaatccctg attctccttg cagaactctt cggagttttc tggacacccc cagatgtgtc
961 tgcgatgatc gcccccttac taggcgacta cgaactacag ggacctgaag atctcgctgt
1021 ggaactcgta ccagtagtaa tgggggggat aggtttggtt ctaggtttca ccaaggagaa
1081 gattggcaag atgctatcat ctgccgcgtc caccctcaga gcttgtaaag accttggagc
1141 atatggattg gaaattctga agttgttcat gaagtggttt ttcccgaaga aagatgaggc
1201 gaatgaactt gcaatggtga gatccattga ggatgcagtg ctagacctcg aagcaattga
1261 gaacaatcac atgaccaccc tactcaaaga caaagacagc ttagcaacct acatgaagac
1321 tctggacctt gaggaggaga aagctaggag actctccacc aaatccgctt ctcctgatat
1381 tgtgggcaca atcaattcac ttctggcacg gattgcagct gcccgttccc tggtgcatcg
1441 ggcaaaagaa gagctttcca gcaggccaag acccgttgtt gtcatgatat caggaaaacc
1501 agggataggg aaaacccacc ttgccagaga tttggcaaag aaagttgcag ccaccctcac
1561 aggagaccag agggtgggcc tcatcccacg gaatggtgtc gaccactggg atgcgtacaa
1621 aggtgagaga gtcgtccttt gggatgacta tggaatgagt aaccccatcc acgacgccct
1681 taggctacaa gaacttgctg acacttgccc cctaacatta aattgtgata gaattgagaa
1741 caaaggaaag gtctttgaca gtgatgccat aattatcaca actaatctgg ctaacccggc
1801 accactggac tatgttaatt ttgaagcatg ttcgaggcgc atcgacttcc tagtgtatgc
1861 tgatgccccc gatgttgaaa aagcaaaacg cgacttccca gggcagcctg acatgtggaa
1921 ggatgctttt agatctgact tctcacacat aaaattgatg ttggcccctc agggtggttt
1981 tgataagaat ggcaacaccc cacatggaag aggtgtcatg aaaaccctca catctggctc
2041 cctcattgcc cgtgcttcag gactcctcca cgaaagactg gatgagtacg agttacaagg
2101 gccaacaccc acaaccttca atttcgacca aaacaaggtg ttcgccttta gacggcttgc
2161 cgctgaaaat aagtacgggc tggtggacac catgagagta ggaagccagc tcaagaatgt
2221 caagactgtg tcagagctca aacaggcact taagaacatt tcaattagaa ggtgccagat
2281 agtctatggt ggtctcacct attcacttga atctgatggc aaaggtaatg tgagggttga
2341 gaaggtacaa agtccagctg tgcagaccaa caatgagcta actggcgcac tacaccacct
2401 aaggtgcgct aggattagat attatgttaa gtgtgtccag gaagctttgt attccatcat
2461 ccaaattgct ggagccgcgt ttgtcaccac gcgcattgca aagcgcatga acatacaaaa
2521 cctctggtcc agaccacagg tagaggatga ggaagagacc accagcaaag acgggtgccc
2581 aaaaccaaag gatgaggagg agtttgtcat ctcgtctgaa gacatcaaag ctgaaggtaa
2641 gaagggaaag aacaagtctg gccgtggcaa gaaacacaca gccttctcga gtaagggtct
2701 tagtgatgag gagtatgatg agtacaagag aatcagagaa gaaagaaatg gcaagtactc
2761 catagaagaa tacctccaag acagagacaa gtactatgag gaggttgcca tagccagggc
2821 tactgaagag gacttctgtg aggaagagga ggccaagatc cggcagagga ttttcagacc
2881 aacaaggaaa caacgcaagg aggagagggt ttcactcgga ttggtcacag gctcagaaat
2941 caggaaaagg aacccggatg acttcaaacc caaaggaaag ttgtgggctg atgacgacag
3001 gagtgtcgat tacaatgaaa agctcagttt tgaagctccc ccaagcatct ggtcgagaat
3061 agtcaacttt ggatcaggtt ggggcttctg ggtctcacca agccttttta taacatccac
3121 ccatgtcata cctcaagggg cacaagagtt cttcggtgtt tccatcaaac agatccaaat
3181 tcataagtca ggtgagttct gccgactaag attcccaaag ccaattagaa ctgatgtgac
3241 aggtatgatc ctagaggagg gggcccctga aggcactgtg gccacactgc tcataaagag
3301 gccaactgga gagctgatgc cactagcggc tagaatgggc acccatgcaa ctatgaagat
3361 ccaaggccga actgtcgggg gacagatggg gatgctcctg acaggatcca acgccaagag
3421 catggatttg ggcactacac caggtgactg tggatgccca tatatctaca aaagaggaaa
3481 tgactacgtg gttatcgggg tccacacagc tgccgcccgc ggagggaaca ctgttatctg
3541 tgcaacccaa ggcagtgagg gcgaggccgt tcttgaaggt ggtgacaaca aaggcaccta
3601 ttgtggcgct ccaatcctag gtccaggaaa tgcccccaaa ctcagtacta aaaccaaatt
3661 ctggaggtcc tcaacagcac cactcccacc tggcacatat gaaccagctt acctcggagg
3721 taaagacccc agggtgaaag gtggtccctc attacaacaa gttatgagag accaattgaa
3781 accgtttaca gaacccagag gcaagccacc aaagcctagt gtattggaag cagccaaaaa
3841 gacaatcatt aatgtccttg agcaaactat agatccaccc caaaaatgga cgttcgcaca
3901 ggcgtgcgca tcccttgata aaacaacctc tagtggctac ccgcaccacg tgcggaagaa
3961 tgaacattgg aatggggaat ctttcacagg gaagttggct gatcaggctt caaaggctaa
4021 tttgatgttt gaggaaggaa aacacatgac accagtctac acaggagctc tcaaggatga
4081 gttagtcaaa actgacaaaa tatatggtaa gatcaagaaa aggttattat ggggctcaga
4141 tctggcaacc atgatccgtt gcgctcgagc gttcggaggg ttgatggatg aactcaaggc
4201 ccactgtgtc acactcccca tcagggtggg gatgaacatg aatgaggatg gtcccatcat
4261 ttttgggaaa cactctaggt acacctacca ttatgatgca gactactctc gatgggactc
4321 aacacagcag agagccgttt tagctgcagc cctggagatc atggtaaagt tttccccaga
4381 accacacctg gctcaaattg tcgcagaaga cctcctatct cccagcgtga tggacgtggg
4441 cgattttaaa atatcaatca ctgaaggact cccctctggg gtgccttgca cctcacaatg
4501 gaactccatt gctcattggc ttctcacgct ctgtgcgctc tctgaggtaa cagatttatc
4561 tcctgacatc atccaagcaa actcactctt ctctttctat ggtgatgatg aaattgtgag
4621 cacagacatt aaattagatc cagaaaggct aacggccaaa ctaaaagagt atggtctcaa
4681 gccaacccgc ccggataaga ctgaagggcc tttggtcatt tctgaggact tagatggtct
4741 gaccttctta cggagaactg tgacccgtga tccagcaggt tggtttggaa aattggaaca
4801 aagctcaata ctaagacaga tgtattggac caggggcccc aatcatgaag acccctctga
4861 aacaatgata ccacattccc aacgacccat acagttgatg tccctattgg gtgaagctgc
4921 attgcatggc ccatcgttct acagcaaaat cagcaaattg gtcatctcag agttgaaaga
4981 aggtggcatg gacttttacg tgccaagaca agagccaatg ttccggtgga tgaggttctc
5041 agacttgagc acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg
5101 cgtcgaatga cgccgctcca tctaatgatg gtgcagccgg tctcgtgcca gaggtcaaca
5161 acgagacgat ggcacttgag ccggtggctg gggcttctat agctgcccct ttaaccggcc
5221 aaaataatgt gatagacccc tggattagaa tgaattttgt ccaagctcca aatggtgaat
5281 ttacagtgtc cccccgtaat tccccaggtg aagtgttgtt aaatttggaa ttaggccctg
5341 aactaaatcc attcctggca cacctttcaa gaatgtataa tggctatgct ggtggggttg
5401 aagtgcaggt gctacttgct gggaatgcgt tcacagcagg aaaactagtg tttgcagcaa
5461 tccccccaca tttccctctt gagaatctga gtcctggtca aattacaatg ttccctcacg
5521 tgattattga tgttagaact ttagaacctg tcctcttgcc tttaccagat gttagaaata
5581 atttctttca ttacaatcag cagcctgagc cccgtatgag acttgtggct atgttgtata
5641 ctcctcttag atctaatggc tctggtgatg atgtgttcac agtctcttgt agggtcctca
5701 cccgcccctc tccagatttt gattttaatt atttggttcc cccaactgtg gaatctaaaa
5761 ctaaaccatt taccctgcca atattgacca ttggagaatt gtcaaattct aggttcccag
5821 tgccaataga tgaattgtat accagcccca atgaaggagt ggttgtgcaa cctcaaaatg
5881 gcagatcaac actcgatggt gaactgcttg gcaccacaca acttgtgcca tcaaacatct
5941 gtgccttgcg agggcgcatt aacgcccgag tgccagacga ccaccatcaa tggaacttgc
6001 aggttacaaa cgcaaatggg actcccttcg accccactga agatgtcccc gcaccattgg
6061 gcacgccgga tttcctggca aacatctacg gagttactag ccagaggaac cctgacaaca
6121 cttgccgtgc ccatgatggg gtcttggcaa cctggagccc taaatttaca cccaagttag
6181 gatctgtggt tttgggtact tgggaagaac atgatcttga tctcaatcaa cctaccagat
6241 tcacacctgt tggtttgtat gatacaaacc actttgatca gtggattcta cccaactact
6301 ctggaagatt gaccttaaac atgaatttgg cgccctccgt tgctcccctt ttcccaggtg
6361 aacaaatact cttctttagg tcccacatac cacttaacgg aggtacttcc aacggtgcca
6421 ttgactgtct actccctcag gagtggatcc agcatttcta tcaggaatca gccccgtcac
6481 ccacagatgt tgctctgatt aggtacacca accctgacac gggccgtgtc ctttttgagg
6541 ccaaactaca tagacaggga tttatcacag tagcaaattc tggttctaga cctattgttg
6601 tcccccctaa tggctatttt aggtttgatt cttgggttaa tcagttttat tctctcgccc
6661 ccatgggaac tgggaatggg cgtagaaggg tgcagtaatg gctggagctt ttgtagcagg
6721 tcttgccggt gatataatca ccaatagcat tggttcactt gtgaacgctg gagccaatgc
6781 aataaaccaa aaagtagatt ttgaaaacaa caaacaacta cagcaggcct ctttcaacca
6841 tgataaggaa atgttgcaag ctcaaattca ggccacaaaa caattacagg ctgacatgat
6901 tgcgctcaga caaggggtgt tgaccgcagg cggcttctcc cctactgatg cagcaagagg
6961 ggcgattaat gcgcccatga cacaagtctt ggactggaat gggactaggt actgggcccc
7021 cggggccacc aaaacaactg tcttctccgg tgggttcaca agctctccca ataccaggac
7081 tgttgatttg cctaggaaaa catcaaccac accagccccc acgcctatat ctaggcctag
7141 ttcttctgct tctactgttt ctacccgctc aacaattgtt agcgggactt ctggcctttc
7201 ttcttcgact aggagctctt ttaattccca gcccacctcc tcttcttctc ggactagcga
7261 atgggtgcgt agtcaaaaca gggcgctgga gccctacatg aggggagcgc tgcaaactgc
7321 ttacgtgacg cctccctcta gtagagcatc cagcaatggc acagtctcaa ccgtgccaaa
7381 agaagttttg gactcctgga catctgtgtt caacacccac agacaaccgc ttttcgctca
7441 tctccgtcgg agaggggagt cacaggttta gtgaaaagat gatttttctt ccattctt
//