Typing tool
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Typing tool
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Complete norovirus genomes
| KY421039 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5004
ORF2: 4985..6607
ORF3: 6607..7413
LOCUS KY421039 7519 bp RNA linear VRL 02-DEC-2017
DEFINITION Norovirus GII strain Hu/GII.Pe_GII.4/Sydney Variant 2015
nonstructrual polyprotein gene, partial cds; and VP1 and VP2 genes,
complete cds.
ACCESSION KY421039
VERSION KY421039.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7519)
AUTHORS Yang,Z. and Kulka,M.
TITLE Direct Submission
JOURNAL Submitted (03-JAN-2017) Molecular Virology Team/Division of
Molecular Biology/OARSA/CFSAN, Food and Drug Administration, 8301
Muirkirk Road, Laurel, MD 20708, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: CLC Genomics Workbench v. 9.5.2
Coverage :: 1285 x
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7519
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/GII.Pe_GII.4/Sydney Variant 2015"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="May-2015"
/note="genotype: GII.Pe_PII.4"
CDS <1..5004
/note="ORF1"
/codon_start=1
/product="nonstructrual polyprotein"
/protein_id="ATY34966.1"
/translation="AVTIKRALGARPKQPPPKETPPRPPRPPTPELVKKIPPPPPNGE
DELVVSYSAKDGVSGLPELTTVRQPEEANTAFSVPPLNQRESRDAKEPLTGTIIEMWD
GEIYHYGLYVERGLILGVHKPPAAISLAKVELTPLSLFWRPVYTPQYLISPDTLRRLH
GESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSK
LKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILNILATCDWTFAGIVESLILLAELFG
VFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMGGIGLVLGFTKEKIGKMLSSAA
STLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIEDAVLDLEAIENNHMTTL
LKDKDSLATYMRTLDFEEEKARKLSTKSASPDIVGTINSLLARIAAARSLVHRAKEEL
SSRPRPVVVMISGRPGIGKTHLARELAKKIAASLTGDQRVGLIPRNGVDHWDAYKGER
VVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAP
LDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGG
FDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEYELQGPALTTFNFDRNKILAFR
QLAAENKYGLMDTMRVGKQLKDVKTMSDLKQALKNIAIKKCQIVYSGSTYTLEADGKG
SVKIDKVQSATVQTNNELAGALHHLRCARIRYYVKCAQEALYSIIQIAGAAFVTTRIA
KRMNIQNLWSKPQVEDTEEITNKDGCLKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKK
HTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEEVAIARATEEDFCEEE
EAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEK
LNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAKEFFGVPIKQIQIHKSGE
FCRLRLPKPIRTDVTGMILEEGAPEGTVATLLIKRPTGELMPLAARMGTHATMKIQGR
TVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICA
TQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLG
GKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNVLEAAKKTVINVLEQTIDPPQKWS
FAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEEGKNMTPVYTG
ALKDELVKTDKVYGKIKKRLLWGSDLATMIRCARAFGGLMDELKAHCVTLPVRVGMNM
NEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAALEIMVKFSPEPHLAQVVAEDL
LSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLLTLCALSEVTDLSPDIIQANSL
FSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTV
TRDPAGWFGKLEQSSILRQMYWTRGPNHEDPFETMIPHSQRPVQLMSLLGEAALHGPA
FYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 4985..6607
/note="ORF2; major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="ATY34967.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLERLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSAEFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYITVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
CDS 6607..7413
/note="ORF3; minor structural protein; minor capsid
protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="ATY34968.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARATTYNAGRFSTPQPSGALPGRANLRDAAPARGSSSKSS
NSSTATTVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGVFNTRRQPLFAHIRKRGESRA"
3'UTR 7414..7519
ORIGIN
1 gctgtcacta ttaagcgggc cctcggggcg cggcctaagc agccgccccc gaaggagaca
61 ccacccagac ccccgcgacc acccacacca gaattggtca aaaagatccc tcctccccca
121 cccaacgggg aggatgaact agtggtctct tacagcgcca aagatggcgt ttccggactg
181 cctgagctca ccactgtcag acaaccggaa gaagccaaca cggcgttcag tgtcccccca
241 ctcaaccaaa gggagagcag agacgccaag gagccactaa ctggaacaat tattgaaatg
301 tgggatggag aaatttacca ttacggcctg tacgtggaac gaggtcttat acttggtgtg
361 cacaagccac cggcagccat cagccttgcc aaggtcgagc taacaccgct ctctttgttc
421 tggagacctg tatacacccc ccagtatctc atctctccag acactcttag gagattacat
481 ggagagtcat tcccctacac tgcatttgac aacaattgct acgccttttg ttgctgggtg
541 ttagacctaa acgactcatg gctaagcagg agaatgattc agagaacaac aggtttcttc
601 aggccgtacc aggattggaa caggaaaccc ctccccacta tggatgattc taaattaaag
661 aaggtagcca acatattctt gtgcactttg tcttcactat tcaccagacc cattaaggac
721 ataataggga agttgaaacc tcttaacatc cttaacattc tggccacatg tgactggacc
781 ttcgcaggca tagtggaatc tttaatactc ttagcagaac tctttggagt tttctggaca
841 cccccagatg tgtctgcgat gatcgccccc ttgctaggtg attatgaact acaaggacct
901 gaggaccttg cagtggaact ggtcccaata gtgatggggg ggataggttt ggtgctagga
961 tttaccaaag agaaaattgg aaagatgtta tcatccgctg catccacttt aagagcttgt
1021 aaggaccttg gtgcatacgg actggaaatc ttaaaattgg tcatgaagtg gttcttccca
1081 aagaaagagg aagcaaatga actggctatg gtgagatcca tcgaggatgc agtgctagac
1141 ctcgaggcaa ttgaaaacaa ccacatgacc accctactca aagacaaaga cagcttggca
1201 acctacatga gaacccttga ctttgaggag gagaaagcca ggaaactctc aaccaaatct
1261 gcttcacctg atattgtggg cacaatcaac tctcttctgg caagaatcgc tgctgcacgc
1321 tccctagtgc atcgggcgaa agaagagctc tctagcaggc cgagacctgt cgttgtgatg
1381 atatcgggaa gaccagggat agggaagact caccttgcca gggagctggc caagaagatc
1441 gcggcctccc tcacagggga ccagcgtgtg ggtcttatcc cacgcaatgg tgtcgatcac
1501 tgggacgcat acaagggcga aagagttgtc ctatgggacg actatggaat gagcaacccc
1561 atccatgatg ccctcaggtt gcaggagctt gctgacactt gccctctcac gctaaattgt
1621 gacagaattg agaacaaagg gaaagtcttt gacagtgatg ccataattat caccaccaat
1681 ctggccaacc cagcaccact ggattatgtc aattttgaag cgtgctcgag acgtattgac
1741 ttcctcgtgt acgcagaagc ccctgaggtg gagaaggcaa agcgcgactt cccaggtcaa
1801 cctgacatgt ggaagaacgc tttcagtcct gacttctcac acataaaact gtcattggct
1861 ccacagggtg gttttgacaa gaacggcaac accccgcatg gaaaaggggt catgaagacc
1921 ctcaccactg gctccctcat cgcccgagca tcagggttgc tccacgagag gctagatgaa
1981 tatgaactgc aaggcccagc cctcaccact ttcaactttg accgcaacaa gatacttgct
2041 tttaggcagc ttgctgctga aaacaagtat ggactgatgg acacaatgag agttggaaaa
2101 cagctcaagg atgtcaagac catgtcagac ctcaaacaag cactcaagaa catcgcgatc
2161 aagaagtgcc agatagtgta cagtggtagc acctacacac ttgaggccga tggcaagggt
2221 agtgtgaaga ttgacaaagt gcaaagtgcc actgtgcaga ccaacaatga actagccggt
2281 gccctacacc acctaaggtg cgctagaatc agatactatg ttaagtgcgc ccaggaggca
2341 ctgtattcca tcatccaaat cgctggggct gcattcgtca ccacgcgcat cgctaagcgc
2401 atgaatatac agaatctttg gtccaagcca caggtggaag acacagaaga gataaccaac
2461 aaagatggtt gcctaaaacc caaggatgac gaagagtttg tcgtctcatc tgatgacatc
2521 aaaactgagg gcaagaaagg gaagaacaag tccggccgtg gcaagaagca cacagccttt
2581 tcaagcaaag ggctcagtga tgaggagtac gatgagtaca agagaatcag agaagaaagg
2641 aatggtaagt actccataga agagtacctt caggacagag acaggtacta cgaggaggtg
2701 gccattgcca gggcaaccga agaggacttc tgtgaagaag aagaggccaa aatccggcag
2761 agaattttca gaccaacaag aaaacaacgc aaagaggaga gggcctccct cggcttggtc
2821 acaggctctg aaatcaggaa gagaaaccca gaagacttca aacccaaggg aaagctgtgg
2881 gctgatgatg acagaagtgt tgactacaat gagaaactca actttgaggc cccaccaagc
2941 atttggtcgc ggatagtcaa ctttggttca ggctggggct tctgggtctc ccccagtctg
3001 tttataacat caacccatgt cataccccaa ggtgcaaaag agttcttcgg agtccctatc
3061 aagcagatcc agatacacaa atcaggtgaa ttctgccggt tgagactccc aaagccaatc
3121 agaactgatg tgacgggcat gattctagaa gaaggtgcgc ccgaggggac cgtggccaca
3181 ctgctcatca agagaccaac tggagagctc atgcctctgg cagccagaat ggggacccat
3241 gcaaccatga aaatccaggg gcgcacagtt ggagggcaaa tgggtatgct cctgacagga
3301 tccaacgcca agagtatgga cctaggcaca acaccaggcg actgcggctg cccctacatc
3361 tacaagaggg ggaatgacta cgtggtcata ggagtccata cggccgctgc ccgtggagga
3421 aacactgtca tatgtgccac ccaggggagt gagggagaag ccacacttga aggaggtgac
3481 agtaaaggga catactgtgg cgcaccaatc ttgggcccag ggagcgctcc gaagctcagt
3541 accaagacta agttttggag atcatccaca acaccactcc cacctggcac ctacgaacca
3601 gcctacctcg gtggcaaaga ccccagagtc aaaggtggcc cttcattgca acaagttatg
3661 agggaccagc taaagccatt cacagaaccc agaggcaaac caccaagacc aaatgtgttg
3721 gaagctgcca agaaaaccgt catcaatgtc cttgagcaaa caattgatcc accccaaaaa
3781 tggtcatttg cgcaagcttg cgcatccctt gacaaaacca cctccagcgg ccacccacac
3841 cacatgcgga aaaacgattg ttggaatggg gagtccttca caggaaaatt ggctgatcaa
3901 gcatccaagg ccaacctaat gtttgaagag ggaaagaaca tgactccagt ctacacaggt
3961 gcacttaaag atgagttggt aaagaccgac aaagtttatg gtaagatcaa gaagaggctt
4021 ctgtggggtt cagatctggc gaccatgata cggtgcgccc gagcttttgg aggccttatg
4081 gatgaactca aggcgcactg tgtcacactt cctgtcagag ttggtatgaa catgaatgag
4141 gatggcccca tcatctttga gaagcactcc agatatagat atcactatga tgctgattat
4201 tcccggtggg actcaacaca acaaagggat gtgctagcag cagcactaga aatcatggtc
4261 aagttctctc cagaaccaca cctggcccag gtagttgcag aagacctcct ttcccctagc
4321 gtaatggatg taggtgactt tcaaatatca ataagtgagg gtcttccctc tggggtgcct
4381 tgcacctccc agtggaactc catcgcccac tggctcctca ctctttgtgc actctctgaa
4441 gtcacggacc tgtcccctga catcattcag gccaactccc ttttctcctt ctatggtgat
4501 gatgagattg tgagtacaga cataaagctg gacccagaga agctgacagc aaaactcaag
4561 gagtacgggc tgaaaccaac ccgccccgat aaaactgaag gaccccttgt tatctctgaa
4621 gacctggatg gcctgacatt cctccggaga actgtgaccc gtgacccagc tggctggttt
4681 ggaaaattgg aacaaagttc aattctcaga caaatgtact ggaccagggg tcccaaccat
4741 gaagatccat ttgagacaat gataccacac tcccaaagac ccgtacaatt gatgtccttg
4801 ctgggcgagg ctgcactcca cggcccggca ttttatagca agattagcaa attagtcatt
4861 gcagagttga aggaaggtgg catggatttt tacgtgccca gacaagagcc aatgttcaga
4921 tggatgagat tctcagatct gagcacgtgg gagggcgatc gcaatctggc tcccagtttt
4981 gtgaatgaag atggcgtcga gtgacgccaa cccatctgat gggtccgcag ccaacctcgt
5041 cccagaggtc aacaatgagg ttatggctct ggagcccgtt gttggtgccg ccattgcggc
5101 acctgtagcg ggccaacaaa atgtaattga cccctggatt agaaacaatt ttgtacaagc
5161 ccctggtgga gagtttacag tatcccctag aaacgctcca ggtgaaatac tatggagcgc
5221 gcccttggga cctgatctaa atccctacct atctcatttg gccagaatgt acaatggtta
5281 tgcaggtggt tttgaagtgc aggtaattct cgcggggaac gcgttcaccg ccgggaaggt
5341 catatttgca gcagtcccac caaattttcc aactgaaggc ttgagcccca gccaggtcac
5401 tatgttcccc catatagtag tggatgttag gcaactagaa cctgtgttga ttcccttacc
5461 cgatgttagg aacaatttct atcattacaa tcaatcaaat gaccccacca ttaagttgat
5521 agcaatgttg tacactccac tcagagctaa caatgctggg gatgatgtct tcacagtctc
5581 ttgccgagtc ctcacgagac catcccccga ttttgatttc atatttctag tgccacccac
5641 agttgagtca agaactaaac cattctctgt cccagtttta actgttgagg agatgaccaa
5701 ttcaagattc ccaattcctt tggaaaggct gttcacgggt cccagcagtg cctttgttgt
5761 ccaaccacaa aacggcaggt gcacgactga tggcgtgctc ctaggcacca cccaactgtc
5821 tcctgtcaac atctgcacct tcagaggaga tgtcacccac atcacaggta gtcataacta
5881 cacaatgaat ttggcttctc aaaattggaa caattatgac ccaacagaag aaataccagc
5941 ccctctagga actccagact ttgtggggaa gattcaaggc gtgctcaccc aaaccacaag
6001 gacagatggc tcaacacgcg gccacaaagc cacagtgtac actgggagcg ccgaatttgc
6061 tccaaaactg ggtagagttc aatttgaaac tgacacaaac catgattttg aagctaacca
6121 aaacacaaag ttcaccccag tcggtgtcat ccaagatggt agcaccaccc accgaaatga
6181 accccaacag tgggtgctcc caagttactc aggcagaaat actcataatg tgcatctggc
6241 ccccgctgta gctcccacct ttccgggtga gcaacttctc ttcttcagat ccaccatgcc
6301 cggatgcagt gggtacccca acatggattt ggactgtctg ctcccccagg aatgggtgca
6361 gtacttctac caagaggcag ccccagcaca atctgatgtg gctctgctga gatttgtgaa
6421 tccagacaca ggcagggttt tgtttgagtg taagcttcat aaatcaggct atattacagt
6481 ggcccacact ggccaacatg acttggttat tccccccaat ggttatttta gatttgattc
6541 ctgggtcaac cagttctaca cgcttgcccc catgggaaat ggaacggggc gtagacgtgc
6601 agtataatgg ctggagcttt ctttgctgga ttggcatctg atgtccttgg ctctggactt
6661 ggttccctta tcaatgctgg ggctggggcc atcaaccaaa aggttgagtt cgaaaacaat
6721 agaaaattgc aacaagcatc cttccaattt agcagcaatc tacaacaggc ttcctttcaa
6781 catgacaaag agatgctcca ggcacaaatt gaggccacca aaaagttaca acaggaaatg
6841 atgaaagtta agcaggcaat gctcctagag ggtgggttct ctgagacgga tgcagcccgc
6901 ggggcaatca acgcccccat gacaaaagct ttggattgga gcgggacaag gtactgggct
6961 cccgatgcta gggctacaac atacaatgca ggccgcttct ccacccctca accatcgggg
7021 gcactgccag gaagagctaa tcttagggat gctgcccctg ctcggggttc ctccagtaaa
7081 tcttctaact cttctactgc tactactgtg tattcaaatc aaactacttc aacgagactt
7141 ggttctacag ctggttctgg taccagtgtc tcgagcctcc cgtcaactgc aaggactagg
7201 agctgggttg aggatcaaag taggaatttg tcacctttca tgaggggggc acacaacata
7261 tcgtttgtca ccccaccatc tagcagatcc tctagccaag gcacagtctc aaccgtgcct
7321 aaagaggttt tggactcctg gactggcgtt ttcaacacgc gcaggcagcc actcttcgct
7381 cacattcgta agcgagggga gtcacgggcg taatgtgaaa agacaaaatt gattatcttt
7441 ctttttcttt agtgtctttt aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa aaaatctctt
7501 ttaaaaaaaa aaaacaaag
//