Typing tool
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Typing tool
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Complete norovirus genomes
| DQ658413 | GII.4 Farmington Hills | |
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| GII.P4 Farmington Hills |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS DQ658413 7558 bp RNA linear VRL 31-AUG-2007
DEFINITION Norovirus Hu/GII.4/MD-2004/2004/US, complete genome.
ACCESSION DQ658413
VERSION DQ658413.1
KEYWORDS .
SOURCE Norovirus Hu/GII.4/MD-2004/2004/US
ORGANISM Norovirus Hu/GII.4/MD-2004/2004/US
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7558)
AUTHORS Johnston,C.P., Qiu,H., Ticehurst,J.R., Dickson,C., Rosenbaum,P.,
Lawson,P., Stokes,A.B., Lowenstein,C.J., Kaminsky,M.,
Cosgrove,S.E., Green,K.Y. and Perl,T.M.
TITLE Outbreak management and implications of a nosocomial norovirus
outbreak
JOURNAL Clin. Infect. Dis. 45 (5), 534-540 (2007)
PUBMED 17682985
REFERENCE 2 (bases 1 to 7558)
AUTHORS Johnston,C.P., Qiu,H., Dickson,C., Rosenbaum,P., Lawson,P.,
Banowetz,A., Ticehurst,J.R., Lowenstein,C.J., Kaminsky,M.,
Cosgrove,S.E., Green,K.Y. and Perl,T.M.
TITLE Management and Economic Impact of a Nosocomial Norovirus Outbreak
JOURNAL Unpublished
REFERENCE 3 (bases 1 to 7558)
AUTHORS Green,K.Y. and Qiu,H.
TITLE Direct Submission
JOURNAL Submitted (26-MAY-2006) Laboratory of Infectious Diseases,
NIAID/NIH, 50 South Drive-MSC8007, Bethesda, MD 20892, USA
FEATURES Location/Qualifiers
source 1..7558
/organism="Norovirus Hu/GII.4/MD-2004/2004/US"
/mol_type="genomic RNA"
/strain="Hu/GII.4/MD-2004/2004/US"
/isolation_source="stool material"
/host="Homo sapiens"
/db_xref="taxon:392172"
CDS 5..5104
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="ABG49508.1"
/translation="MKMASNDASAAAVAYSNDDTAKSSSDGVLSSMAVTFKRALGARS
KQPPPRETPQRPPRPPTPELVKKIPPPPPNGEDEIVVSYSVKDGVSGLPELSTVRQPE
EANTAFSVPPLYQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTVDDSKLKKVANIFLCALSSLFTRPIKDIIGK
LKPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGRQLKDVRTM
PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTSNELTGALHHLR
CARIRYYVRCVQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVENTEEVTNKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPNVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPYHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYRYHYDADYSRWD
STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5085..6707
/note="ORF2"
/codon_start=1
/product="VP1"
/protein_id="ABG49509.1"
/translation="MKMASNDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIADTHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRGDGSTRGHKATVSTGDVHFTPKLGSIQFNTDTNNDFETGQNTKFTPVGVVQDG
NGTHQNEPQQWVLPSYSGRTGHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMNLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6707..7513
/note="ORF3"
/codon_start=1
/product="VP2"
/protein_id="ABG49510.1"
/translation="MAGAFFAGLASDVLGSGLGSLISAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQGMMEVKRAMLLEGGFSETDASRGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPLGALPGRTNPRATVPARGFSSVPS
NASTATSVYSNQTVSTRLGSTAGSGTSVSSLPSTARTRSWIEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgcttaca gcaacgacga
61 caccgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc
121 cctcggggcg cggtctaaac agcccccccc gagggaaaca ccacagagac ccccacgacc
181 acctactcca gaactggtca aaaagatccc tcctcccccg cccaacggag aggatgaaat
241 agtggtttct tatagtgtca aagatggcgt ttccggtttg cctgagcttt ccaccgttag
301 gcaaccggaa gaagctaaca cggccttcag tgtccccccg ctctatcaga gggagaatag
361 ggatgctaag gagccactga ctggaacaat tctggaaatg tgggatgggg aaatctacca
421 ttacggcctg tatgtggagc gaggtcttgt actaggcgtg cacaaaccac cagctgccat
481 tagcctcgcc aaggtcgaac taacaccact ctccttgttc tggagacctg tgtatactcc
541 tcaatatctc atctctccag acactctcaa gaaattacac ggagaaacgt tcccttacac
601 agcctttgac aacaattgct atgccttttg ttgctgggtc ctggacctaa acgactcgtg
661 gctgagtagg agaatgatcc agagaacaac tggcttcttc agaccctacc aagattggaa
721 taggaaaccc ctccccactg tagatgattc caagttaaag aaggtagcta atatattcct
781 gtgtgctctg tcctcgctgt tcaccaggcc cataaaagac ataataggga agctgaagcc
841 tcttaatatc ctcaacatct tggcctcgtg tgattggact ttcgcaggca tagtggagtc
901 cttgatactc ctggcagagc tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gattgccccc ttactcggtg actacgagtt acagggaccc gaggaccttg cagtggagct
1021 cgtccctgta gtgatggggg gaattggttt ggtgctggga ttcaccaaag agaagattgg
1081 aaaaatgttg tcatctgctg cgtccacctt gagagcttgc aaagatcttg gtgcatatgg
1141 gctagagatc ctaaagttgg tcatgaagtg gttcttcccg aagaaagagg aagcaaatga
1201 actggctatg gtgagatcca tcgaggatgc agtgctggac ctcgaggcaa ttgaaaacaa
1261 ccatatgacc accttgctca aagacaaaga cagtctggca acctacatga gaacccttga
1321 ccttgaggag gagaaagcca gaaaactctc aaccaagtct gcttcacctg acatcgtggg
1381 cacaatcaac gcccttctgg cgagaatcgc tgccgcacgt tccctggtgc atcgagcgaa
1441 ggaggagctt tccagcagac caagacctgt agtcttgatg atatcaggca gaccaggaat
1501 agggaagacc caccttgcta gggaagtggc taagagaata gcagcctccc tcacaggaga
1561 ccagcgtgta ggcctcatcc cacgcaatgg cgtcgatcac tgggatgcgt acaaggggga
1621 gagggtcgtc ctatgggacg actatggaat gagcaatccc atccacgacg ccctcaggtt
1681 gcaagaactc gctgacactt gccccctcac tctaaactgt gacaggattg agaataaagg
1741 aaaggtcttt gacagcgatg tcatcattat cactactaac ctggccaacc cagcaccact
1801 ggactatgtc aactttgaag catgctcgag gcgcatcgat ttcctcgtgt atgcagaagc
1861 ccctgaagtc gaaaaggcga agcgtgactt cccaggccaa cctgacatgt ggaagaacgc
1921 ctttagttct gatttttcac acataaaact agcactggct ccacagggtg gcttcgataa
1981 aaatgggaac accccgcacg ggaagggcgt catgaagact ctcaccactg gctcccttat
2041 tgcccgggca tcagggctac tccatgagag gctagatgag tttgaactgc agggcccagc
2101 tctcaccacc ttcaactttg atcgcaacaa agtgcttgcc tttaggcagc ttgctgctga
2161 aaacaaatat gggttgatgg acacaatgag agttgggagg cagctcaagg atgtcagaac
2221 catgccagag cttaaacaag cactcaagaa tatctcaatc aagaagtgcc agatagtgta
2281 cagtggttgc acctacacac ttgagtctga cggcaagggc aatgtgaagg ttgacagagt
2341 tcagagcacc tccgtgcaga ccagcaatga gctgactggc gccctgcacc acctaaggtg
2401 tgccagaatc aggtactatg tcaggtgtgt ccaggaggcc ctgtattcca tcatccagat
2461 tgctggggct gcatttgtca ccacgcgcat cgtcaagcgc atgaacatac aagacctatg
2521 gtccaagcca caagtggaaa acacagagga ggttaccaac aaggacgggt gcccaaaacc
2581 caaagatgat gaggagttcg tcatttcatc cgacgacatc aaaactgagg gtaagaaagg
2641 gaagaacaag actggtcgcg gcaagaagca cacagccttc tcaagcaaag gtctcagtga
2701 tgaagagtat gatgagtaca agaggattag agaagagagg aatggcaagt actccataga
2761 agagtacctc caggacaggg acaaatacta tgaggaggtg gccattgcca gggcgaccga
2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttta gaccaacaag
2881 aaaacaacgc aaggaggaaa gagcttctct cggtttagtc acaggttctg aaattaggaa
2941 aagaaaccca gatgatttca agcccaaggg gaaactgtgg gctgacgatg acagaagtgt
3001 ggactacaat gagaaactca gctttgaggc cccaccaagc atctggtcga ggatagtcaa
3061 ctttggttca ggttggggct tctgggtctc ccccagtctg ttcataacat caacccatgt
3121 cataccccag ggcgcaaagg agttctttgg agttcccatc aaacaaattc aggtacacaa
3181 atcaggcgaa ttctgtcgct taagattccc aaaaccaatc aggactgatg tgacgggtat
3241 gatcttagaa gaaggtgcgc ccgaaggcac cgtggtcaca ctactcataa aaaggcctac
3301 aggagaactc atgcccctag cagctagaat ggggacccat gcaaccatga aaatccaagg
3361 gcgcactgtt ggaggccaga tgggcatgct tctgacagga tctaacgcca aaagcatgga
3421 cctaggcacc acaccaggtg attgcggctg tccctacatc tacaagagag gaaatgacta
3481 tgtggtcatt ggagtccaca cggctgccgc tcgtggggga aacactgtca tatgtgccac
3541 ccaggggagt gagggggagg ctacacttga aggtggtgac agtaagggaa catactgtgg
3601 tgcaccaatc ctaggcccag ggagtgcccc aaaacttagc accaagacca aattctggag
3661 atcgtccaca gcaccactcc cacctggcac ctatgaacca gcctatcttg gtggcaagga
3721 ccccagagtc aagggtggcc cttcattgca gcaagtcatg agggatcagt tgaaaccatt
3781 cacagagccc aggggaaaac caccaaagcc aaacgtgtta gaagctgcca agaaaaccat
3841 catcaatgtc cttgagcaaa caattgatcc acctgagaaa tggtcattcg cacaagcttg
3901 cgcgtccctc gacaagacca cttccagtgg ccatccgtac cacatgcgga aaaacgactg
3961 ctggaacggg gaatccttca caggcaagct ggcagatcag gcttccaagg ccaacctgat
4021 gttcgaagaa gggaaaaaca tgaccccagt ctacacaggt gcgcttaagg atgaattggt
4081 caaaactgac aaaatttatg gtaagatcaa gaagaggctt ctctggggct cggatttagc
4141 gaccatgatc cgatgtgctc gagcattcgg aggcctaatg gatgaactca aagcacactg
4201 tgttacactt cctatcagag ttggtatgaa tatgaatgag gatggcccta tcatattcga
4261 gaggcattcc aggtacagat atcactatga tgctgattac tctcgatggg attcaacaca
4321 acagagagct gtgttggcag cagctctaga aatcatggtc aaattctcct cagaaccaca
4381 tttggctcag gtggtcgcag aagaccttct ttctcctagc gtggtggatg tgggtgactt
4441 cacaatatca atcaacgagg gtctcccctc tggggtgccc tgcacctccc aatggaactc
4501 catcgcccac tggcttctca ctctctgtgc gctctctgaa gttacaaatc tgtcccctga
4561 catcatacag gctaattccc tcttctcctt ttatggtgat gatgaaatcg tcagcacaga
4621 cataaaattg gacccagaga agttgacagc aaagctcagg gaatatgggc tgaaaccaac
4681 ccgccctgac aaaactgaag ggccccttgt tatctctgaa gacttaaatg gtctgacttt
4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagttc
4801 aatactcagg caaatgtact ggactagggg ccccaaccat gaagacccat ctgaaacaat
4861 gattccacac tcccaaagac ccatacagtt gatgtccttg ctgggagagg ccgcactcca
4921 cggcccagca ttctacagca aaatcagcaa gttagtcatt gcagagctaa aagaaggtgg
4981 catggatttt tacgtgccca ggcaagagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 atgacgccaa cccatctgat gggtccacag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtgga gagtttacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttgggc cctgatctga
5341 atccctacct ttctcacttg gccagaatgt acaatggtta tgcaggtggc tttgaagtgc
5401 aggtaatcct tgcggggaat gcgttcaccg ccgggaaaat catatttgca gcagtcccac
5461 caaatttccc aactgaaggc ttgagcccca gccaagttac tatgttcccc catataatag
5521 tagatgttag gcaactggaa cctgtgttga tccccttacc tgatgttagg aacaatttct
5581 atcactacaa ccaatcaaat gaccccacca ttaaattgat agcaatgctg tacacaccac
5641 ttagggctaa taatgctggg gaagatgtct tcacagtctc ttgtcgagtc ctcacgaggc
5701 catcccccga ttttgatttc atatttttgg tgccacccac agttgagtca agaactaaac
5761 cattcaccgt cccaatttta actgttgagg aaatgaccaa ttcaagattc cccattcctt
5821 tggaaaagtt gttcacgggt cctagcggtg cctttgttgt tcaaccacaa aatggcaggt
5881 gcacgactga tggcgtgctc ttaggtacta cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac attgcagaca ctcataatta cacaatgaat ttggcttctc
6001 aaaattggaa caattatgac ccaacagaag aaatcccagc ccctctgggg accccagatt
6061 tcgtgggaaa gatccaaggc atgctcaccc aaactacaag gggggatggc tctacccgcg
6121 gccacaaagc cacagtgagc actggggatg tccatttcac tccaaagctg ggcagtattc
6181 agttcaacac tgatacaaac aatgattttg aaactggcca aaacacgaaa ttcaccccag
6241 tcggtgttgt ccaggatggt aatggtaccc accagaatga accccaacaa tgggtgctcc
6301 caagctactc aggtagaact ggtcataatg tacacctagc ccccgccgta gcccccactt
6361 ttccgggtga gcaacttctt ttcttcaggt ccactatgcc cggatgcagc gggtacccca
6421 acatgaattt ggattgtcta ctcccccagg aatgggtgca acacttctac caagaggcag
6481 ctccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttc
6541 tatttgagtg caagcttcat aaatcaggct atgtcacagt ggctcacact ggccagcatg
6601 atttggttat cccccccaat ggctacttta gatttgattc ctgggtcaac caattctaca
6661 cacttgcccc catgggaaat gggacggggc gtagacgtgc attataatgg ctggagcttt
6721 ctttgccggg ctggcatctg atgtccttgg ctctggactt ggttccctaa tcagtgctgg
6781 ggctggggcc atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcttc
6841 cttccaattt agtagcaatc tacaacaagc ttccttccaa catgacaaag agatgctcca
6901 agcacaaatt gaggccacta aaaagttgca acagggtatg atggaagtta aacgggcaat
6961 gctcctagag ggtggattct ctgaaacaga tgcatcccgt ggggcaatca acgcccccat
7021 gacaaaggct ttggactgga gcggaacaag gtactgggct cctgatgcta ggactacaac
7081 atacaatgca ggccgctttt ccacccctca acccttgggg gcactaccag gaaggaccaa
7141 tcccagggct actgtccccg ctcggggctt ctccagtgta ccttctaatg cttctactgc
7201 tacttctgtg tattcaaatc aaactgtttc aacgagactt ggttctacag ctggttctgg
7261 caccagtgtc tcgagtctcc cgtcaactgc aaggactagg agctggattg aggatcaaaa
7321 caggaatttg tcacctttca tgaggggagc tcacaacata tcgtttgtca ccccaccatc
7381 tagtagatcc tctagccaag gcacagtctc aaccgtgcct aaagaagttt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgcc cacattcgta agcgagggga
7501 gtcacgggca taatgtgaaa agacaaaatt gattttcttt ctcttcttta gtgtcttt
//