Typing tool
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Typing tool
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Complete norovirus genomes
| JQ798158 | GII.4 Farmington Hills | |
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| GII.P4 Farmington Hills |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS JQ798158 7558 bp RNA linear VRL 23-AUG-2012
DEFINITION Norovirus Hu/GII.4/5M/USA/2004, complete genome.
ACCESSION JQ798158
VERSION JQ798158.1
KEYWORDS .
SOURCE Norovirus Hu/GII.4/5M/USA/2004
ORGANISM Norovirus Hu/GII.4/5M/USA/2004
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7558)
AUTHORS Dicaprio,E., Ma,Y., Purgianto,A., Hughes,J. and Li,J.
TITLE Internalization and dissemination of human norovirus and animal
caliciviruses in hydroponically grown romaine lettuce
JOURNAL Appl. Environ. Microbiol. 78 (17), 6143-6152 (2012)
PUBMED 22729543
REFERENCE 2 (bases 1 to 7558)
AUTHORS Ma,Y., Hughes,J.H. and Li,J.
TITLE Sequence analysis of norovirus GII.4
JOURNAL Unpublished
REFERENCE 3 (bases 1 to 7558)
AUTHORS Ma,Y., Hughes,J.H. and Li,J.
TITLE Direct Submission
JOURNAL Submitted (19-MAR-2012) Department of Food Science and Technology,
The Ohio State University, 2015 Fyffe Road, Columbus, OH 43210, USA
FEATURES Location/Qualifiers
source 1..7558
/organism="Norovirus Hu/GII.4/5M/USA/2004"
/mol_type="genomic RNA"
/strain="Hu/GII.4/5M/USA/2004"
/isolate="5M"
/host="Homo sapiens"
/db_xref="taxon:1195791"
/country="USA"
/collection_date="2004"
/note="genotype: GII.4"
CDS 5..5104
/note="ORF1"
/codon_start=1
/product="non-structural polyprotein"
/protein_id="AFL70022.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARS
KQPPPRETPQRPPRPPTPELVKKIPPPPPNGEDEIVVSYSVKDGVSGLPELSTVRQPE
EANTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVDRGLVLGVHKPPAAIS
LAKVELTPLSLFWRPVYTPQYLTSPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTVDDSKLKKVANIFLCALSSLFTRPIKDIIGK
LKPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHEKLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGRQLKDVRTM
PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTSNELTGALHHLR
CARIRYYVRCVQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVENTEEVTNKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLSFEAPPGIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCSYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKSFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYRYHYDADYSRWD
STQQRAVLAAALGIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLAAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5085..6707
/note="capsid protein; ORF2"
/codon_start=1
/product="VP1"
/protein_id="AFL70023.1"
/translation="MKMASNDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLAHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VGNNFYHYNQSNDPTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGTHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGRIQGML
TQTTRGDGSTRGHKATVSTGDVHFTPKLGSIQFNTDTNNDFETGQNTKFTPVGVVQDG
NGAHQNEPQQWVLPSYSGRTGHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMNLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6707..7513
/note="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AFL70024.1"
/translation="MAGAFFAGLASDVLGSGLGSLISAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQGMMEVKRAMLLEGGFSETDASRGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRTNPRATVPARGFSNAPS
NTSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga
61 caccgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc
121 cctcggggcg cggtctaaac agcccccccc gagggaaaca ccacaaagac ccccacgacc
181 acctactcca gaactggtca aaaagatccc tcctcccccg cccaacggag aggatgaaat
241 agtggtttct tatagtgtca aagatggcgt ttccggtttg cctgagctct ccaccgttag
301 gcaaccggaa gaagccaata cggccttcag tgtccccccg ctcaatcaga gggagaatag
361 ggatgctaag gagccactga ctggaacaat tctggaaatg tgggatgggg aaatctacca
421 ttacggcctt tatgtggatc gaggtcttgt actaggcgtg cacaagccac cagctgccat
481 tagcctcgcc aaggtcgaac taacaccact ctccttgttc tggagacctg tgtatactcc
541 tcagtacctc acctctccag acactctcaa gaaattacac ggagaaacgt tcccttacac
601 agcctttgac aacaattgct atgccttttg ctgctgggtc ctggacctaa acgactcgtg
661 gctgagtagg agaatgatcc agagaacaac cggctttttc agaccctacc aagattggaa
721 taggaaaccc ctccccactg tggatgattc caagttaaag aaggtagcta atatattcct
781 gtgtgctctg tcttcgctgt tcaccaggcc cataaaagac ataataggga agctaaagcc
841 tcttaacatc ctcaacatct tggcctcatg tgattggact ttcgcaggca tagtggagtc
901 cttgatactc ctggcagagc tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gattgccccc ttactcggtg actacgagtt acaaggaccc 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 tagaggatgc agtgctggac ctcgaggcaa ttgaaaacaa
1261 ccatatgacc accttgctca aagacaaaga cagtctggca acctacatga gaacccttga
1321 ccttgaggag gagaaagcca gaaaactctc aaccaagtct gcttcacctg acatcgtggg
1381 cacaatcaat gcccttctgg cgagaatcgc tgctgcacgt tccctggtgc atcgagcgaa
1441 ggaggagctt tccagcagac caagacctgt ggtcttgatg atatcaggta gaccaggaat
1501 agggaagacc caccttgcta gggaagtggc taagagaatc gcagcctccc tcacaggaga
1561 ccagcgtgtg ggcctcatcc cacgcaatgg cgtcgaccac tgggatgcgt acaaggggga
1621 gagggtcgtt ctatgggacg actatggaat gagcaatccc atccacgatg ccctcaggtt
1681 gcaagaactc gctgacactt gccccctcac tctaaactgt gacaggattg agaataaagg
1741 aaaggtcttt gacagcgatg tcatcattat cactactaac ctggccaacc cggcaccact
1801 ggactatgtc aactttgagg catgctcgag gcgcatcgat ttcctcgtgt atgcagaagc
1861 ccctgaagtc gaaaaggcga agcgtgactt cccaggccaa cctgacatgt ggaagaacgc
1921 ctttagttct gatttttcac acataaaact agcactggct ccacagggtg gcttcgataa
1981 aaacgggaac accccgcacg ggaagggcgt catgaagact ctcaccactg gttcccttat
2041 tgcccgggca tcagggctac tccatgagaa gctagatgag tttgaactac agggcccagc
2101 tctcaccacc ttcaactttg accgcaacaa agtgcttgcc tttaggcaac ttgctgctga
2161 aaacaaatat gggttgatgg acacaatgag agttgggagg cagctcaagg atgtcagaac
2221 catgccagag cttaaacaag cactcaagaa tatctcgatc aagaagtgcc agatagtgta
2281 cagtggttgc acctacacac ttgagtctga cggcaagggc aatgtgaaag ttgacagagt
2341 tcagagcacc tccgtgcaga ccagcaatga gctgactggc gccctgcacc acctaaggtg
2401 tgccagaatc aggtactatg tcaggtgtgt ccaggaggcc ctgtattcca tcatccagat
2461 tgccggggct gcatttgtca ccacgcgcat cgtcaagcgc atgaacatac aagacctatg
2521 gtccaagcca caagtggaaa acacagagga ggttaccaac aaggacgggt gcccaaaacc
2581 caaagatgat gaggagttcg tcatttcatc tgacgacatt aaaactgagg gcaagaaagg
2641 gaagaacaag actggtcgcg gcaagaagca cacagccttc tcaagcaaag gtctcagtga
2701 tgaagagtat gatgagtaca agaggattag agaagagagg aatggcaagt attccataga
2761 agagtacctc caggacaggg acaaatacta tgaggaggtg gccattgcca gggcgaccga
2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttta ggccaacaag
2881 aaaacaacgc aaggaggaaa gagcttctct cggtttagtc acaggttctg aaattaggaa
2941 aagaaaccca gatgatttca agcccaaggg gaaactgtgg gctgacgata atagaagtgt
3001 ggactacaat gagaaactca gctttgaggc cccaccaggc atctggtcga ggatagtcaa
3061 ctttggttca ggttggggct tctgggtctc ccccagcctg ttcataacat caacccatgt
3121 cataccccag ggcgcaaagg agttctttgg agttcccatc aaacaaattc aggtacacaa
3181 atcaggcgaa ttctgccgct tgagattccc aaaaccaatc aggactgatg tgacgggtat
3241 gatcttagaa gaaggtgcgc ccgaaggcac cgtggtcaca ctactcataa aaaggtctac
3301 aggagaactc atgcccctag cagctagaat ggggacccat gcaaccatga aaattcaagg
3361 gcgcactgtt ggaggtcaga tgggcatgct tctgacagga tctaacgcta aaagcatgga
3421 cctaggcacc acaccaggtg attgcggctg ttcctacatc tacaagagag gaaatgacta
3481 tgtggtcatt ggagtccaca cggctgccgc tcgtggggga aacactgtca tatgtgccac
3541 ccaggggagt gagggggagg ctacgcttga aggtggtgac agtaagggaa catactgcgg
3601 tgcaccaatc ttaggtccag ggagtgcccc aaaacttagc accaagacca aattctggag
3661 atcgtccaca gcaccactcc cacctggcac ctatgaacca gcctatcttg gcggcaagga
3721 ccccagggtc aagggtggcc cttcattgca gcaagtcatg agggatcagt tgaaatcatt
3781 tacagagccc aggggaaagc caccaaagcc aagtgtgtta gaagctgcca agaaaaccat
3841 tattaatgtc cttgagcaaa caattgatcc acctgagaaa tggtcgttcg cacaagcttg
3901 cgcgtccctc gacaaaacca cttccagtgg ccatccgcac cacatgcgga aaaacgactg
3961 ctggaacggg gaatctttca caggcaagct ggcggatcag gcttccaagg ccaacctgat
4021 gttcgaagaa gggaagaaca tgaccccagt ctacacaggt gcgcttaagg atgaattggt
4081 caaaactgat aaaatttatg gtaagatcaa gaagaggctt ctctggggct cggatttagc
4141 gaccatgatc cgatgtgctc gagcattcgg aggcctaatg gatgaactca aagcacactg
4201 tgtcacactt cctatcagag ttggtatgaa tatgaatgag gatggcccca tcatattcga
4261 gaggcattcc aggtacagat atcactatga tgctgattac tctcggtggg attcaacaca
4321 acagagagct gtgttggcag cagctctagg aatcatggtt aaattctcct cagaaccaca
4381 tttggctcag gtagtcgcag aagaccttct ttctcctagc gtggtggatg tgggtgactt
4441 cacaatatca atcaacgagg gtctcccctc tggggtgccc tgcacctccc aatggaactc
4501 catcgcccac tggcttctca ctctctgtgc gctctctgaa gttacaaatc tgtcccctga
4561 catcatacag gctaattccc tcttctcctt ttatggtgat gatgaaatcg ttagcacgga
4621 cataaaattg gacccagaga agttggcagc 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 tctcaaagac ccatacagtt gatgtcctta 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 cccgatctga
5341 atccctacct tgctcatttg gccagaatgt acaatggcta tgcaggtggc tttgaagtgc
5401 aggtaatcct tgcggggaat gcgttcaccg ccggaaaaat catatttgca gcagtcccac
5461 caaatttccc aactgaaggc ttgagcccca gccaggtcac tatgttcccc catatagtag
5521 tagatgttag gcaactggaa cctgtgttga tccccttacc tgatgttggg aacaatttct
5581 atcattacaa ccaatcaaat gaccccacca ttaaactgat agcaatgctg tacacaccac
5641 ttagggctaa taatgctggg gaagatgtct ttacagtctc ttgtcgagtc ctcacgaggc
5701 catctcccga ttttgatttc atatttttgg tgccacccac agttgagtca agaactaaac
5761 cattcaccgt cccaatctta actgttgagg aaatgaccaa ttcaagattc cccattcctt
5821 tggaaaagtt gttcacgggt cctagcggtg cctttgttgt tcaaccacaa aatggcaggt
5881 gcacgactga tggcgtgctt ttaggcacta cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac attgcaggca ctcataatta cacaatgaat ttggcttctc
6001 aaaattggaa caattatgac ccaacagaag aaatcccagc ccctctgggg accccagatt
6061 tcgtgggaag gatccaaggc atgctcaccc aaactacaag gggagatggc tctacccgcg
6121 gccacaaagc tacagtgagc actggggatg tccacttcac cccaaagctg ggcagtattc
6181 agttcaacac tgatacaaac aatgattttg aaactggcca aaacacgaaa ttcaccccag
6241 tcggtgttgt ccaggatggt aatggtgccc accaaaatga acctcaacaa tgggtgctcc
6301 caagctactc aggtagaact ggtcataatg tacacttagc ccccgccgta gcccccactt
6361 ttccgggtga gcaacttctt ttcttcaggt ccactatgcc cgggtgcagc gggtacccta
6421 acatgaattt ggattgtcta ctcccccaag aatgggtgca gcacttctac caagaggcag
6481 ccccagcaca 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 cttcgccggg ctggcatctg atgtccttgg ctctggactt ggttccctaa tcagtgctgg
6781 ggctggggcc atcaaccaga aagttgaatt tgaaaataac agaaaattgc aacaagcttc
6841 cttccaattt agtagcaatc tacaacaggc ttcctttcaa catgataaag agatgctcca
6901 agcacaaatt gaggccacta aaaagttaca acagggtatg atggaagtta aacgggcaat
6961 gctcctagag ggtggattct ctgaaacaga tgcatctcgt ggggcaatca acgcccccat
7021 gacaaaggct ttggactgga gcggaacgag gtactgggct cctgatgcta ggactacaac
7081 atacaatgca ggccgctttt ccacccctca accctcgggg gcactgccag gaaggaccaa
7141 tcccagggct actgtccccg ctcggggctt ctccaatgca ccctctaata cttctactgc
7201 tacttctgtg tattcaaatc agactatttc aacgagactt ggttctacag ctggttctgg
7261 caccagtgtc tcgagtctcc cgtcaactgc aaggactagg agctgggttg aggatcaaaa
7321 caggaatttg tcacctttca tgaggggagc tcacaacata tcgtttgtca ccccaccatc
7381 tagtagatcc tctagccaag gcacagtctc aaccgtgcct aaagaagttt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga
7501 gtcacgggcg taatgtgaaa agacaaaact gattatcttt ctcttcttta gtgtcttt
//