Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| AB972474 | GII.4 Den Haag | |
|
|---|---|---|---|
| GII.P4 Den Haag |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7509
LOCUS AB972474 7509 bp RNA linear VRL 08-JAN-2016
DEFINITION Norovirus Hu/GII.4/Miyagi3/2012/JP RNA, complete sequence.
ACCESSION AB972474
VERSION AB972474.1
KEYWORDS .
SOURCE Norovirus Hu/GII.4/Miyagi3/2012/JP
ORGANISM Norovirus Hu/GII.4/Miyagi3/2012/JP
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1
AUTHORS Sato,H., Yokoyama,M. and Motomura,K.
TITLE Evidence for antigenic variation in norovirus outbreaks in Japan
between 2006 and 2012
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7509)
AUTHORS Sato,H., Nakamura,H. and Motomura,K.
TITLE Direct Submission
JOURNAL Submitted (02-JUL-2014) Contact:Kazushi Motomura National Institute
of Infectious Diseases, Pathogen Genomics Center; Gakuen 4-7-1,
Musashi-Murayama, Tokyo 208-0011, Japan
FEATURES Location/Qualifiers
source 1..7509
/organism="Norovirus Hu/GII.4/Miyagi3/2012/JP"
/mol_type="genomic RNA"
/strain="Hu/GII.4/Miyagi3/2012/JP"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:1518346"
/geo_loc_name="Japan:Miyagi"
CDS 1..5100
/note="contains N-terminal, NTPase, 3A, VPg, 3Cpro and
3Dpol"
/codon_start=1
/product="polyprotein"
/protein_id="BAU24854.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDKMFSSMAVTFKRALGARP
KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELSTVRQPE
ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED
LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTM
PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSIQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEDATNKDGC
PKPKDIEEFVISSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGTEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVAGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGNSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKDGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRAVLAAALEIMVRFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5081..6703
/codon_start=1
/product="VP1"
/protein_id="BAU24855.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTKGDGSTRGHKATVYTGSAPFTPKLGSVQFETDTENDFETHQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNVPNVHLAPAVAPTFPGEQLLFFRSIMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6703..7509
/codon_start=1
/product="VP2"
/protein_id="BAU24856.1"
/translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAVN
APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRVNPRTPTPARGSPNTSS
NASTATSLYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgctgttg ctaacagcaa caacgacacc
61 gcaaaatctt caagtgacaa aatgttttct agcatggctg tcacttttaa acgagccctc
121 ggggcgcggc ctaaacagcc ccccccgagg gaaataccac aaagaccccc acgaccacct
181 accccagaac tggtcaaaaa gatccctcct cccccgccta acggagagga tgagctagtg
241 gtttcttaca gtgccaaaga tggcgtttcc ggtttacctg agctctccac cgtcaggcag
301 ccggaagaaa ctaatacggc cttcagtgtc cctccactca atcagaggga gaatagggat
361 gctaaggaac cactgactgg aacaattctg gaaatgtggg atggagagat ctaccattat
421 ggcctatatg ttgagcgagg tcttgtgctg ggtgtgcaca aaccaccagc tgctattagc
481 ctcgccaagg tcgaactaac accactctcc ttgttctgga gacctgtgta cactcctcag
541 tacctcatct ctccagacac tctcaagaaa ttacacggag aaacattccc ctacacagcc
601 ttcgacaaca attgctatgc cttttgttgc tgggtcctgg atctaaacga ctcgtggctg
661 agcaggagaa tgatccagag aacaactggc ttcttcagac cttaccaaga ttggaatagg
721 aaacctctcc ccactatgga tgactccaaa ttaaagaagg tggctaatat attcctgtgc
781 accctgtctt cgctgttcac caggcccata aaagacataa tagggaagtt aagacccctc
841 aacatcatca acatcctggc ttcatgtgat tggaccttcg caggcatagt ggagtccttg
901 atactcttgg cagagctctt tggagtcttc tggacacccc cagatgtgtc tgcgatgatt
961 gcccccttac tcggtgactt cgagttacaa ggacctgagg accttgtagt ggagctcgtc
1021 cctgtagtaa tggggggaat tggtttggtg ctagggttca ccaaagagaa aattggaaaa
1081 atgttgtcat ctgctgcatc taccttgaga gcttgtaaag atcttggtgc atatgggcta
1141 gagatcctaa agttagtcat gaagtggttc ttcccgaaga aagaagaagc aaatgaactg
1201 gctatggtga gatccatcga ggatgcagta ctggatcttg aagcaattga aaacaaccac
1261 atgaccacct tgcttaaaga caaagacagc ctggcaacct atatgagaac ccttgacctc
1321 gaggaagaaa aagccagaaa actctcaacc aaatctgctt cacctgacat cgtgggcaca
1381 atcaacgccc ttctggcgag aatcgccgct gcacgctcct tggtgcaccg agcgaaggag
1441 gagctctcca gcagaccaag acctgtagtc ttgatgatat caggcagacc aggaataggg
1501 aagacccacc ttgctaggga agtggctaag agaatcgcag cctccctcac aggagaccag
1561 cgtgtgggcc tcatcccacg caatggcgtc gaccactggg atgcgtataa gggggagagg
1621 gttgtcctat gggacgacta cggaatgagc aatcccatcc acgacgccct caggctgcaa
1681 gaactcgctg acacctgccc cctcactcta aattgtgaca ggattgagaa taaagggaag
1741 gtctttgaca gcgatgtcat tatcatcacc actaacctgg ccaacccagc accactggac
1801 tatgttaact ttgaggcgtg ctcgaggcgc attgatttcc tcgtgtatgc agaagccccc
1861 gaggtcgaaa aggcgaagcg tgacttcccg ggtcaacctg acatgtggaa aaacgctttc
1921 agttctgatt tctcacacat aaaactggca ttggctccac aaggtggctt tgataagaac
1981 gggaacaccc cacacgggaa gggcgtcatg aagaccctca ccactggctc cctcatcgcc
2041 cgggcatcag ggctactcca tgagagattg gatgagtttg aactacaggg cccagccctt
2101 accaccttca actttgaccg caacaaagta cttgccttca ggcagcttgc tgctgaaaac
2161 aaatacgggt tgatggacac aatgaaagtt gggaggcagc tcaaggatgt caaaaccatg
2221 ccagaactta aacaagcact caagaatatc tcaatcaaga agtgccagat tgtgtatagt
2281 ggttgcacct acacacttga gtctgatggt aagggcaatg tgaaagttga cagagttcag
2341 agtacttcta ttcagaccaa caatgagctg gctggcgccc tacatcacct aaggtgcgcc
2401 agaattaggt actatgtcaa gtgtgttcag gaggccctgt attctatcat ccagattgct
2461 ggggctgcgt ttgtcaccac gcgcatcatc aagcgtgtga acattcaaga cttatggtcc
2521 aagccacaag tggaaaacac agaggatgcc accaacaagg acgggtgccc aaaacccaaa
2581 gatattgagg agttcgtcat ttcatctgac gacattaaaa ctgagggtaa gaaagggaag
2641 aacaaatctg gccgtggcaa gaagcacaca gccttctcaa gtaaaggtct cagtgatgaa
2701 gagtatgatg agtacaagag aattagagag gaaaggaatg gcaagtactc catagaagag
2761 tacctacagg acagggacag atactatgag gaggtggcca ttgccagggc gaccgaggaa
2821 gacttctgtg aagaggagga ggccaagatc cggcaaagga tcttcagacc aacaagaaag
2881 caacgcaagg aagaaagggc ttctctcggt ttggtcacag gtactgaaat taggaaaagg
2941 aacccagaag acttcaagcc taaggggaaa ctatgggctg acgatgacag aagtgtggac
3001 tacaatgaaa aactcagctt tgaggcccca ccaagcattt ggtcaaggat agtcaacttt
3061 ggctcaggtt ggggcttctg ggtctccccc agcctgttca taacatcaac ccacgttata
3121 ccccagggcg caaaggagtt ctttggagtc cccatcaaac aaattcaggt gcacaagtca
3181 ggcgaattct gtcgcttgag gttcccaaaa ccaatcagga ctgatgtggc tggcatgatc
3241 ttggaagaag gtgcgcccga aggcaccgtg gtcacactac tcatcaaaag gtctactgga
3301 gaactcatgc ccctagcagc tagaatgggg acccatgcaa ccatgaagat tcaggggcgc
3361 actgttggag gtcagatggg catgcttctg acaggatcca acgccaaaag catggatcta
3421 ggcaccacac caggtgactg cggctgtccc tacatctaca agagagggaa tgactatgtt
3481 gtcattggag tccacacggc tgctgctcgt gggggaaaca ctgtcatttg tgccacccaa
3541 gggggtgagg gggaagctac acttgaaggt ggtaacagta agggaacgta ctgtggtgca
3601 ccaatcctag gcccagggag tgccccaaaa cttagcacca aaaccaaatt ctggagatca
3661 tccacagcac cactcccacc tggcacctat gaaccagcct acctaggtgg caaggatccc
3721 agggtcaagg atggcccctc gttgcagcaa gtcatgaggg accagctgaa accatttaca
3781 gagcccaggg gtaagccacc aaagccaagt gtgttagaag ctgccaagaa aaccatcatc
3841 aatgtccttg aacaaacaat tgacccacct gagaagtggt cgttcgcaca agcttgcgcg
3901 tcccttgaca agaccacttc tagcggccat ccgcaccaca tgcggaaaaa cgactgctgg
3961 aacggggaat ccttcacggg caagctggca gaccaggctt ccaaggccaa cctgatgttt
4021 gaagagggga agaacatgac cccagtctac acaggtgcac ttaaggatga gttagtcaaa
4081 actgacaaaa tttatggtaa aatcaagaag agacttctct ggggctcgga tttagcaacc
4141 atgatccggt gcgctcgagc attcggaggc ctgatggatg aactcaaagc acactgtatc
4201 acacttccta tcagagttgg tatgaacatg aatgaggatg gtcccatcat cttcgagaag
4261 cattccaggt acagatacca ctatgatgct gactactctc ggtgggattc aacacagcag
4321 agagccgtgt tggcagctgc tctagaaatt atggttagat tctcctcaga accacatttg
4381 gctcaggtgg tagcagaaga cctcctttct cctagcgtgg tggatgtggg tgacttcaca
4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc
4501 gcccactggc ttctcactct ctgtgcactc tccgaagtca caaatttgtc cccagacatc
4561 atacaggcta attctctctt ctccttctat ggtgatgatg aaattgttag tacagacata
4621 aaattagacc cagagaaatt gacagcaaag ctcaaggaat acggattgaa accaactcgc
4681 cctgataaaa ctgaaggacc tcttgttatc tctgaagact tagatggttt gaccttcctg
4741 cggagaaccg tgacccgcga cccagctggt tggtttggaa aactggagca gagctcaata
4801 ctcaggcaaa tgtactggac taggggcccc aaccatgaag atccatctga atcaatgatt
4861 ccacactctc aaagacccat acaattgatg tccttactgg gagaggccgc gctccacggc
4921 ccaacattct acagcaaaat cagcaaatta gtcattgcag agcttaaaga aggtggtatg
4981 gatttttacg tgcccaggca agagccaatg ttcagatgga tgagattctc agatctgagc
5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgaatga
5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggttat
5161 ggctttggag cccgttgtcg gtgccgctat tgcggcgcct gtagcgggcc aacaaaatgt
5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggagagt tcacagtatc
5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ttaggccctg atctgaatcc
5341 ctacctatct catctggcca gaatgtataa tggttatgca ggtggttttg aagtgcaggt
5401 gattctcgcg gggaacgcgt tcaccgccgg aaaaattata tttgcagcag tcccaccaaa
5461 ttttccaact gaaggcttga gtcccagtca ggtcaccatg ttcccccata taatagtgga
5521 tgttaggcaa ttggaacctg tgttgatccc cttacctgat gttaggaata atttctacca
5581 ctataatcag tcaaatgatt ctaccattaa attgatagca atgctgtata caccacttag
5641 ggctaataat gctggggaag atgtcttcac agtctcttgt cgagttctca cgaggccatc
5701 ccctgatttt gatttcatat ttttggtgcc acctacagtt gagtcaagaa ctaagccatt
5761 tactgtccca atcctaactg ttgaagaaat gaccaactca aggttcccca ttcctttgga
5821 gaagttgttc acgggtccca gcagtgcctt tgttgttcaa ccacaaaatg gcagatgcac
5881 aactgatggc gtgctcttag gcaccaccca gctgtctcct gtcaacatct gcaccttcag
5941 aggggatgtc acccacattg caggttctcg taattacaca atgaatttgg cttctctaaa
6001 ttggaacaac tatgacccaa cagaagaaat tccagcccct ctaggaactc cagatttcgt
6061 gggaaagatc caaggtatgc tcactcaaac cacaaaggga gatggctcga cccgtggcca
6121 taaagctaca gtttacactg ggagtgcccc cttcactcca aagctgggca gtgttcaatt
6181 cgaaactgac acagaaaatg attttgaaac ccaccaaaac acaaaattca ccccagtcgg
6241 tgtcatccag gatggtggca ccacccaccg aaatgaacct caacaatggg tgctcccgag
6301 ttattcaggt agaaatgtcc ctaatgtaca cctagcccct gctgtagccc ccacttttcc
6361 gggtgaacaa ctccttttct ttaggtccat tatgcccgga tgcagcgggt atcccaacat
6421 ggacttggac tgcctgctac cccaggagtg ggtgcagcac ttctaccaag aggcagctcc
6481 agcacaatct gatgtggctc tattgagatt tgtgaatcca gacacgggta gggtcctgtt
6541 tgagtgcaaa cttcataagt caggctatgt cacagtggcc cataccggcc agcatgattt
6601 ggtcatcccc cccaatggtt attttaggtt tgattcctgg gttaaccaat tctatacgct
6661 tgcccccatg ggaaacggaa cggggcgtag acgtgctttg taatggctgg agctttcttt
6721 gctggattgg catctgatgt ccttagctct ggacttggtt ccctaatcaa tgctggggct
6781 ggggctatca accaaaagat cgattttgaa aataacagaa aattgcagca ggcttccttc
6841 cagtttagca gtaatctaca acaggcttcc tttcaacatg acaaggagat gcttcaagca
6901 caaattgagg ccactaaaaa gttgcaacag gaaatgatga aagtcaaaca ggcaatgctc
6961 ctagaaggtg gattctctga aacagatgca gcccgtgggg cagtcaacgc ccctatgaca
7021 aaggttttgg actggagcgg aacaaggtat tgggcccctg atgctaggac cacaacatac
7081 aatgcaggcc gtttttccac ccctcaacct tcaggggcat tgccaggaag agtcaatccc
7141 agaactccca cccccgctcg gggctccccc aacacatctt ctaatgcttc tactgctact
7201 tctttgtatt caaatcaaac tgtttcaacg agacttggtt ctacagctgg ctctggcacc
7261 aatgtctcga gtctcccgtc aactgcaagg actaggagtt gggttgagga tcaaagcaga
7321 aatttgtcac ctttcatgag gggggctcac aacatatcgt tcgtcacccc accatctagt
7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag aagttttgga ctcctggact
7441 ggcgctttta acacgcgcag gcagcctctc ttcgctcaca ttcgtaggcg aggggagtca
7501 cgggtgtaa
//