Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| AB933738 | GII.4 Apeldoorn | |
|
|---|---|---|---|
| GII.P4 New Orleans |
ORF1: 1..5097
ORF2: 5081..6703
ORF3: 6703..7509
LOCUS AB933738 7509 bp RNA linear VRL 02-SEP-2015
DEFINITION Norovirus Hu/GII.4/Niigata5/2009/JP genomic RNA, complete genome.
ACCESSION AB933738
VERSION AB933738.1
KEYWORDS .
SOURCE Norovirus Hu/GII.4/Niigata5/2009/JP
ORGANISM Norovirus Hu/GII.4/Niigata5/2009/JP
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1
AUTHORS Sato,H., Yokoyama,M. and Motomura,K.
TITLE Identification of strong evolutionary constraints on viral capsid
protein during divergent evolution of a norovirus pandemic lineage
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7509)
AUTHORS Sato,H., Nakamura,H. and Motomura,K.
TITLE Direct Submission
JOURNAL Submitted (09-MAY-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/Niigata5/2009/JP"
/mol_type="genomic RNA"
/strain="Hu/GII.4/Niigata5/2009/JP"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:1498732"
/geo_loc_name="Japan:Niigata"
/collection_date="2009"
CDS 1..5097
/note="contains N-terminal, NTPase, 3A, VPg, 3Cpro and
3Dpol"
/codon_start=1
/product="polyprotein"
/protein_id="BAS30274.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARP
KQPPPRETPQRPPRPPTPELVKKIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGAILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LARVELTPLSLYWRPVYTPQYLISPDSLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKIANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGIFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLIMKWFFP
KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHEALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM
PELKQALKNVSIKKCQIVYSGCTYILESDGKGNVKVDRIQSASVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTNKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAILEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHTRKNDCW
NGESFTGKLADQASKANLMFEEGKSMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKLSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTTKLK
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHGDPSETMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGV"
CDS 5081..6703
/codon_start=1
/product="VP1"
/protein_id="BAS30275.1"
/translation="MKMASNDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLFPLARKVKGYAGG
FEVQVILAGKAFPAGKIIFAASPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSTFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRRDGSTRGHKATVYTGSADFSPKLGRVQFATDTDNDFDTHQNTKFTPVGVIQDG
GTAHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6703..7509
/codon_start=1
/product="VP2"
/protein_id="BAS30276.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSSLQQASFQHDKEMLQAQIEATKKLQQEMVRVKQAMLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWVPDARTTTYNAGRFSTPQPLGALPGRANLGTAVPAQGSSSTSS
NSSIATSVYSNQTISTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgctgttg ctaacagcaa caacgacacc
61 gcaaaatctt caagtgacgg agtgctttct agcatggctg tcacttttaa acgagccctc
121 ggggcgcggc ctaaacagcc ccccccgagg gaaacaccac aaagaccccc acgaccacct
181 actccagaac tggtcaaaaa gatccccccc cccccgccca acggagagga tgaaatagtg
241 gtttcttata gtgtcaaaga tggtgtttcc ggtttgcctg atctttccac cgtcaggcaa
301 ccggaagaat ccaacacggc tttcagtgtc cctccactca atcagaggga gaatagagat
361 gctaaggaac cactcactgg agcaattctg gaaatgtggg atggggaaat ctaccattat
421 ggcctgtatg ttgagcgagg tcttgtacta ggtgtgcaca aaccaccagc cgccatcagc
481 ctcgccaggg ttgagctaac accactctcc ttgtactgga gacctgtgta cactcctcag
541 tacctcatct ctccagactc tctcaagaaa ttacacggag aaacatttcc ctacacagcc
601 tttgacaaca attgttatgc cttctgttgc tgggtcctgg atctaaatga ctcgtggctg
661 agcaggagaa tgatccagag aacaactggt ttcttcagac cctaccaaga ctggaatagg
721 aaacccctcc ccactatgga tgactccaaa ttaaagaaga tagctaacat attcctgtgt
781 gctctgtcct cgctgttcac cagacccata aaagatataa tagggaagat aaggcctctt
841 aacatcctca acatcttagc ttcatgtgac tggacttttg caggcatagt ggagtccctg
901 atactcttgg cagaactctt tggaattttc tggacacccc cagatgtgtc tgcgatgatt
961 gcccccttac tcggtgacta cgagttacaa ggacctgagg accttgcagt ggagctcgtc
1021 cctgtggtga tggggggaat tggtttggta ctaggattca ccaaagagaa gattggaaaa
1081 atgttgtcat ctgctgcgtc caccttgaga gcttgtaaag accttggtgc atatgggcta
1141 gagatcctaa agttgatcat gaagtggttc ttcccgaaga aggaggaagc aaatgaactg
1201 gctatagtga ggtctatcga ggatgcagtc ctggatcttg aggcaattga aaacaaccat
1261 atgaccacct tgctcaaaga caaagacagt ctggcaacct acatgagaac ccttgacctt
1321 gaggaagaaa aggccaggaa actttcaacc aagtctgcct cacctgacat cgtgggcaca
1381 atcaacgccc tcctggcgag aatcgctgcc gcacgttctc tggtgcaccg agcgaaggag
1441 gagctttcca gcagaccaag acctgtggtg ttgatgatat caggcagacc aggaataggg
1501 aagacccacc tcgctaggga agtggctaag agaatcgcag cctcccttac aggagaccag
1561 cgtgtgggcc tcatcccacg caatggcgtc gatcattggg acgcgtacaa gggggagagg
1621 gtcgtcctat gggacgatta tggaatgagc aatcctatcc acgaagccct caggctgcaa
1681 gaacttgctg acacttgccc cctcactcta aactgtgaca ggattgagaa taaaggaaag
1741 gtctttgaca gcgatgtcat catcatcacc actaatctgg ccaacccagc accactggac
1801 tatgtcaact ttgaagcatg ctcgaggcgc atcgacttcc tcgtgtatgc agaagcccct
1861 gaagtcgaaa aggcgaagcg tgacttccca ggccagcctg acatgtggaa aaacgccttc
1921 agttctgatt tctcacacat aaaactagca ctggcccctc agggtggttt cgacaagaac
1981 gggaacaccc cgcacggaaa gggcgtcatg aagactctca ctactggctc ccttattgcc
2041 cgggcatcag ggctactcca tgagaggtta gatgaatttg aattacaggg cccagctctc
2101 accaccttca atttcgaccg caataaagtg cttgccttta gacaacttgc tgctgaaaat
2161 aaatatggat tgatggacac aatgagagtt gggaaacagc tcaaggatgt tagaaccatg
2221 ccagaactca aacaagcact caagaatgtc tcaatcaaga agtgccaaat agtgtatagt
2281 ggttgcacct acatacttga gtctgacggc aagggtaatg tgaaggttga cagaatccaa
2341 agcgcctccg tgcagaccaa caatgagctg gctggtgccc tgcaccattt gaggtgcgcc
2401 agaatcagat actatgtcaa gtgtgtccag gaggccctgt attccatcat tcaaattgct
2461 ggggctgcat ttgtcaccac gcgcatcgcc aagcgcatga acatacaaga cctatggtcc
2521 aagccacaag tggaaaacac agaggagacc accaacaagg acgggtgccc aaaacccaag
2581 gatgatgagg agtttgtcat ttcatccgac gacatcaaaa ctgagggcaa gaaagggaag
2641 aacaagactg gccgcggcaa gaagcacaca gccttttcaa gcaaaggcct cagtgatgaa
2701 gagtacgatg agtacaagag gattagagaa gaaaggaatg gcaagtactc catagaagag
2761 tacctccagg acagggacaa atactatgag gaggtggcca ttgccagggc gactgaggaa
2821 gacttctgtg aagaggagga ggccaagatc cggcaaagga tctttaggcc aacaaggaaa
2881 caacgcaagg aggaaagagc ttctctcggt ctggtcacag gctctgaaat taggaaaaga
2941 aacccagacg acttcaaacc caagggtaaa ttgtgggctg acgatgacag aagtgtggac
3001 tacaatgaga aactcagttt tgaggcccca ccaagcatct ggtcgagaat agtcaatttt
3061 ggttcaggct ggggattctg ggtctccccc agtctgttca taacatcaac ccatgtcata
3121 ccccagggtg caaaggagtt ctttggagtc cccatcaaac aaattcaggt tcacaagtca
3181 ggcgagttct gtcgcttgag gttcccaaaa ccaatcagga ctgatgtgac gggcatgatc
3241 ttggaagaag gcgcacctga gggcaccgtg gtcacactac tcatcaaaag gtccaccggg
3301 gaactcatgc ccctagcagc taggatgggg acccatgcaa ccatgaagat ccaagggcgc
3361 actgttggag gccagatggg catgcttctg acaggatcca atgccaagag catggacctg
3421 ggtaccacac caggtgattg tggctgtccc tatatctaca agagaggaaa tgactatgtg
3481 gtcattggag tccacacggc tgccgcacgt gggggaaaca ctgtcatatg tgccacccag
3541 gggagtgaag gggaggctat acttgaaggt ggtgacaaca aggggacata ctgtggtgca
3601 ccaatcctgg gcccagggag tgccccaacc cttagcacca agaccaaatt ctggaggtcg
3661 tctacggcac cgctcccacc tggcacctat gaaccagcct atcttggtgg caaagaccct
3721 agagtcaagg gtggcccttc actgcagcaa gtcatgaggg aacagttgaa gccattcaca
3781 gagccaaggg gcaaaccacc aaagccaagt gtattagagg ctgccaagaa gaccatcatc
3841 aatgtccttg agcaaacaat tgatccacct gagaaatggt cattcgcgca agcttgcgcg
3901 tccctcgaca agaccacttc cagtggtcat ccgcaccaca cgcggaaaaa cgactgctgg
3961 aacggggagt ccttcacagg caagctggca gaccaggctt ccaaggccaa cctgatgttt
4021 gaagaaggga agagcatgac cccagtctac acagctgcgc tcaaggatga gttagttaaa
4081 actgacaaaa tttatggtaa gatcaagaag aggcttctct ggggctcaga tttggcaacc
4141 atgatccggt gtgctcgagc gttcggaggc ctaatggatg aactcaaagc acactgtgtc
4201 acacttccca ttagggttgg tatgaatatg aatgaggatg gccccatcat cttcgagagg
4261 cattccaggt acacatatca ctatgatgct gattactctc ggtgggattc aacacaacag
4321 agagccgtgt tggcagcagc tctagaaatc atggttaagc tctccccaga accacatttg
4381 gctcaggtag tcgcggaaga ccttctttct cctagcgtgg tggatgtggg cgacttcaca
4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaattccatc
4501 gcccactggc ttctcactct ctgtgcgctc tctgaagtca caaacttgtc ccctgatacc
4561 atacaggcta actccctctt ctctttttat ggtgatgatg aaattgttag cacagacata
4621 aaattggacc cagaaaaatt gactacaaag ctcaaggaat atgggttaaa accaacccgc
4681 cctgacaaaa ctgaaggacc ccttgtcatc tctgaagact tgaatggtct aaccttcctg
4741 cggagaactg tgacccgcga cccagctggt tggtttggaa aactggagca gagctcaata
4801 ctcaggcaaa tgtactggac taggggcccc aaccatggag acccttctga aacaatgata
4861 ccacactccc aaagacccat acaattgatg tccttgctgg gggaggccgc tctccacggc
4921 ccaacattct acagcaaaat cagcaaattg gtcattgcag agttaaaaga aggtggtatg
4981 gatttttacg tgcccaggca agagcctatg ttcagatgga tgagattctc agatctgagc
5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtctaatga
5101 cgccaaccca tctgatgggt ccacagccaa cctcgtccca gaggtcaaca atgaggttat
5161 ggctttggag cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt
5221 aattgacccc tggattagaa acaattttgt acaagcccct ggtggagagt tcacagtatc
5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ttaggccctg atttgaatcc
5341 ctaccttttc ccattggcca gaaaggtcaa aggttatgca gggggttttg aagtgcaggt
5401 aattcttgcg gggaaagcgt tccccgccgg gaaaatcata tttgcagcat ccccacccaa
5461 ttttccaact gaaggcttga gtcccagcca ggtcactatg ttcccccata taatagtgga
5521 tgttaggcaa ttggaacctg tgttgatccc cttacctgat gttaggaata acttctatca
5581 ttataatcaa tcaaatgact ccaccatcaa attgatagca atgttgtata caccacttag
5641 ggctaataat gctggggaag atgtcttcac agtctcttgt cgagttctta cgagaccatc
5701 ccccgatttt gatttcatat ttttggtgcc acccacagtt gagtcaagaa ctaaaccatt
5761 ctctgtccca attttaactg ttgaagaaat gaccaattca aggttcccca ttcctttgga
5821 aaagttgttc acgggtccca gtagtacctt tgttgttcaa ccacaaaacg gcaggtgcac
5881 gactgatggc gtgctcttag gcactaccca actgtctcct gtcaacatct gcacctttag
5941 aggggatgtc acccacattg caggctctcg taattacaca atgaatttgg cttctcaaaa
6001 ttggaacagt tatgacccaa cagaagaaat cccagcccct ctaggaactc cagatttcgt
6061 ggggaagatt caaggtgtgc tcacccaaac cacaaggaga gatggttcga cccgcggcca
6121 caaagctaca gtgtacactg ggagtgccga cttttctcca aaactgggta gagttcaatt
6181 tgccactgac acagacaatg attttgatac tcaccaaaac acaaagttca ccccagtcgg
6241 tgttatccag gatggtggta ctgcccaccg aaatgaaccc caacaatggg tgctcccaag
6301 ttactcaggc agaaatactc ataatgtgca cctggcccct gctgtagccc ccactttccc
6361 gggtgagcaa ctcctcttct tcagatctac tatgcccgga tgcagcgggt accccaacat
6421 ggatttggat tgtctgcttc cccaggagtg ggtgcagtat ttctaccaag aagcagcccc
6481 agcacaatct gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt
6541 tgagtgtaag cttcataaat caggctatgt tacagtggcc cacaccggcc aacatgattt
6601 ggttatcccc cccaatggtt attttagatt tgattcctgg gtcaaccagt tctacacact
6661 tgcccccatg ggaaatggaa cggggcgtag acgtgcattg taatggctgg agctttcttt
6721 gctggattgg catctgacgt ccttggctct ggacttggtt ccctaatcaa tgctggggct
6781 ggggccatca accaaaaagt tgaatttgaa aataacagaa aattgcaaca agcttccttc
6841 caatttagta gcagtctaca acaggcttcc tttcaacatg ataaagagat gctccaagca
6901 caaattgagg ccaccaaaaa gttgcaacag gaaatggtga gagttaaaca agcaatgctc
6961 ctagagggtg gattctctga gacagatgca gcccgtgggg caatcaacgc ccccatgaca
7021 aaagttttag actggagcgg gacaaggtac tgggtccctg atgctaggac tacaacatat
7081 aatgcaggcc gcttttccac ccctcaaccc ttgggggcac tgccaggaag agctaatctc
7141 gggactgctg tccccgccca gggttcctcc agtacatctt ctaactcttc tattgctact
7201 tctgtgtatt caaatcaaac catttcaacg agacttggtt ctacagctgg ttctggtacc
7261 aatgtctcga gcctcccgtc aactgcaagg actaggagct gggttgagga tcaaaacagg
7321 aatttgtcac ctttcatgag gggggctcac aacatctcgt ttgtcacccc accatctagt
7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag aagttttgga ctcctggact
7441 ggcgctttca atacgcgcag gcagcctctc ttcgctcaca ttcgtaagcg aggggagtca
7501 cgggtgtaa
//