Typing tool
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Typing tool
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Complete norovirus genomes
| KU311158 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5091
ORF2: 5072..6694
ORF3: 6694..7500
LOCUS KU311158 7525 bp RNA linear VRL 01-JAN-2016
DEFINITION Norovirus Hu/GII.4/AlbertaEI350/2014/CA isolate OU2 non-structural
polyprotein gene, partial cds; and major capsid protein and minor
capsid protein genes, complete cds.
ACCESSION KU311158
VERSION KU311158.1
KEYWORDS .
SOURCE Norovirus Hu/GII.4/AlbertaEI350/2014/CA
ORGANISM Norovirus Hu/GII.4/AlbertaEI350/2014/CA
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7525)
AUTHORS Hasing,M.E., Hazes,B., Lee,B.E., Preiksaitis,J.K. and Pang,X.L.
TITLE Analysis of the intra-host genetic diversity of norovirus in
patients with acute and chronic infection using next generation
sequencing
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7525)
AUTHORS Hasing,M.E., Hazes,B., Lee,B.E., Preiksaitis,J.K. and Pang,X.L.
TITLE Direct Submission
JOURNAL Submitted (15-DEC-2015) Provincial Laboratory for Public Health,
8440-112 Street, Edmonton, Alberta T6G 2J2, Canada
COMMENT ##Assembly-Data-START##
Assembly Method :: Bowtie v. 2-2.2.5
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7525
/organism="Norovirus Hu/GII.4/AlbertaEI350/2014/CA"
/mol_type="genomic RNA"
/isolate="OU2"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:1772261"
/country="Canada"
/collection_date="Sep-2014"
CDS <1..5091
/codon_start=1
/product="non-structural polyprotein"
/protein_id="ALT54477.1"
/translation="ASNDASAAAVANSNNDIAKSSSDGVLSNMAVTFKRALGARPKQP
PPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETN
TAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAK
VELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLS
RRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKP
LNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAV
ELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKE
EANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSA
SPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKK
IAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLT
LNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKR
DFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGL
LHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDL
KQALKNIAIKKCQIVYSGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCAR
IRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDDCLKP
KDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS
IEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGS
EIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLF
ITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVA
TLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGC
PYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGS
APKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGK
PPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGE
SFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATM
IRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQ
QRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQW
NSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYG
LKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHE
DPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMF
RWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5072..6694
/note="VP1"
/codon_start=1
/product="major capsid protein"
/protein_id="ALT54478.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6694..7500
/note="VP2"
/codon_start=1
/product="minor capsid protein"
/protein_id="ALT54479.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSPSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNFSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRTRGESRV"
3'UTR 7501..>7525
ORIGIN
1 gcgtctaacg acgcttccgc tgccgctgtt gccaacagca acaacgacat cgcaaaatct
61 tcaagtgacg gtgtgctttc taacatggct gtcactttta agcgggccct cggggcgcgg
121 cctaaacagc cgcccccgaa ggaaatacca cccagacccc cgcgaccacc cacaccagaa
181 ttggtcaaaa agatccctcc tcccccaccc aacggggagg atgaactagt ggtctcttac
241 agcgccaaag atggcgtttc cggactgcct gagctcacca ctgtcagaca accggaagaa
301 accaacacgg cgttcagtgt ccccccactc aaccaaaggg agagcaggga cgccaaggag
361 ccactaactg gaacaatcat tgaaatgtgg gatggagaaa tctaccatta cggcctgtac
421 gtagaacgag gtcttatact tggtgtgcac aagccaccgg cagccattag ccttgccaag
481 gtcgagctag caccgctctc tttgttctgg agacctgtat acacccccca gtatctcatc
541 tctccagaca ctcttaggag attacatgga gagtcattcc cctacactgc atttgacaac
601 aattgctacg ccttttgttg ttgggtatta gacctaaacg actcatggct aagcaggaga
661 atgattcaga gaacaacagg cttcttcagg ccgtaccagg attggaacag gaagcccctc
721 cccactatgg atgattccaa attaaagaag gtagccaaca tattcttgtg cactttgtct
781 tcactattta ccagacccat taaggacata atagggaagt tgaaacctct taacatcctt
841 aacattctgg ctacatgtga ttggaccttc gcaggcatag tggaatcctt aatactcttg
901 gcagaactct ttggagtttt ctggacaccc ccagatgtgt ctgcgatgat cgcccccttg
961 ctaggtgatt atgaactgca aggacctgag gaccttgcag tggaactggt ccctatagtg
1021 atggggggga taggtttggt gctaggattt accaaagaga aaatcgggaa gatgctatca
1081 tccgctgcat ccactttaag agcttgtaaa gaccttggtg catacggact ggaaatctta
1141 aaattggtca tgaagtggtt cttcccaaag aaagaggaag caaatgaact ggctatggtg
1201 agatccatcg aggatgcagt actagacctc gaggcaattg aaaacaacca catgaccacc
1261 ctactcaaag acaaagatag cttggcaacc tacatgagaa cccttgacct tgaggaggag
1321 aaagccagaa aactctcaac caaatctgct tcacccgata ttgtgggcac aatcaactct
1381 cttctggcaa gaatcgctgc tgcacgctcc ctagtgcatc gggcgaaaga agagctctcc
1441 agcaggccga gacctgtcgt tgtgatgata tcgggaagac cagggatagg gaaaactcac
1501 cttgccaggg agctggccaa gaagatcgcg gcctccctca caggggacca gcgtgtgggt
1561 cttatcccac gcaatggtgt cgaccactgg gacgcataca aaggcgaaag agttgtccta
1621 tgggacgact atggaatgag caaccccatc catgatgccc tcaggttgca ggagcttgct
1681 gacacttgcc ccctcacgct aaattgtgac agaattgaga acaaagggaa agtctttgac
1741 agtgatgcca taattatcac caccaatctg gccaacccgg caccactgga ttatgtcaac
1801 tttgaagcgt gctcgagacg cattgatttc ctcgtgtacg cagaagcccc tgaggtggag
1861 aaggcaaagc gcgacttccc aggtcaacct gacatgtgga agaatgcttt cagtcctgac
1921 ttctcacaca taaaactgtc attggctcca cagggtggtt ttgacaagaa cggcaacacc
1981 ccgcatggaa aaggggtcat gaagaccctc accactggct ccctcatcgc ccgagcatca
2041 gggttactcc atgagaggct agatgaatat gaactgcaag gcccagccct caccactttc
2101 aactttgacc gcaacaagat acttgctttt aggcagcttg ctgctgaaaa caagtatggg
2161 ctgatggaca caatgagggt tggaaaacag ctcaaggatg tcaagaccat gtcagacctc
2221 aaacaagcac tcaagaacat cgcgatcaag aagtgccaga tagtgtacag tggtggcacc
2281 tacacacttg aggctgatgg caagggtagt gtgaaagttg acaaagtgca aagtgccact
2341 gtgcagacca acaatgaact agccggtgcc ctacaccacc taaggtgcgc cagaatcaga
2401 tactatgtta agtgcgtcca ggaggcactg tattccatca tccaaatcgc tggggctgca
2461 tttgtcacca cgcgcatcgc taagcgcatg aatatacaga atctctggtc caagccacag
2521 gtggaagaca cagaagagat ggccaacaaa gatgattgcc taaaacccaa agatgatgaa
2581 gagtttgtcg tctcatccga cgacatcaaa actgagggca agaaagggaa gaacaagtcc
2641 ggccgtggca agaagcacac agccttttca agtaaagggc tcagtgatga ggagtacgac
2701 gagtacaaga gaatcagaga agaaaggaat ggtaagtact ccatagaaga gtaccttcag
2761 gacagagaca ggtactacga ggaggtggcc attgccaggg caaccgaaga ggacttctgt
2821 gaagaagaag aggccaaaat ccggcagaga attttcaggc caacaaggaa acaacgcaaa
2881 gaagagaggg cctctctcgg cttggtcaca ggctctgaaa tcaggaagag aaacccagaa
2941 gacttcaaac ccaagggaaa gctgtgggct gatgatgaca gaagtgttga ctacaatgag
3001 aaactcaact ttgaggcccc accaagcatc tggtcgcgga tagtcaactt tggttcaggc
3061 tggggcttct gggtctcccc cagtctattt ataacatcaa cccatgtcat accccaaggt
3121 gcaaaagagt ttttcggagt ccctatcaag caaatccaga tacacaagtc aggtgaattc
3181 tgccggttga gattcccaaa gccaatcaga actgatgtga cgggcatgat tctagaagaa
3241 ggtgcacccg aggggaccgt ggccacactg ctcatcaaga gaccaactgg agagctcatg
3301 cctctggcag ccagaatggg gacccatgca accatgaaaa ttcaggggcg tacagttgga
3361 gggcaaatgg gcatgctcct gacaggatcc aacgccaaga gtatggacct aggcacaaca
3421 ccaggcgact gcggctgccc ctacatctac aagaggggga atgactacgt ggtcataggg
3481 gtccatacgg ccgctgcccg tggaggaaac actgtcatat gtgccaccca ggggagtgag
3541 ggagaagcca cacttgaagg aggcgacagt aaagggacat actgtggcgc accaatcttg
3601 ggcccaggga gcgctccgaa gcttagtacc aagactaagt tttggagatc atccacaaca
3661 ccactcccac ctggcaccta cgaaccagcc tacctcggtg gcaaagaccc tagagtcaaa
3721 ggtggccctt cattgcaaca agttatgagg gaccagctga agccattcac agaacccaga
3781 ggcaaaccac caagaccaaa tgtgttggaa gctgccaaga aaaccattat caatgtcctt
3841 gagcaaacaa ttgacccacc ccaaaaatgg tcatttgcgc aagcttgcgc atcccttgac
3901 aagaccacct ccagcggcca cccgcaccac atgcggaaaa acgactgttg gaatggggag
3961 tccttcacgg gaaaattggc tgatcaagcc tccaaggcca acctaatgtt tgaagaggga
4021 aagaacatga ctccagtcta cacaggtgca cttaaagatg agttggtaaa gactgataaa
4081 gtttatggca aggtcaagaa gaggcttctg tggggttcag atctggcgac catgatacgg
4141 tgcgcccgag cttttggagg ccttatggat gaactcaagg cacactgtgt cacacttcct
4201 gtcagagttg gtatgaacat gaatgaggat ggccccatca tctttgagaa gcactccaga
4261 tatagatatc actatgatgc tgattattcc cggtgggact caacacaaca aagggatgtg
4321 ctggcagcag cactagaaat catggttaag ttctccccag aaccacacct ggcccagata
4381 gttgcagaag acctcctttc ccctagcgtg atggatgtag gtgactttca aatatcaata
4441 agtgagggtc tcccctctgg ggtaccttgc acctcccagt ggaattccat cgcccactgg
4501 ctcctcactc tgtgtgcact ctctgaagtc acggacctgt cccctgatat cattcaggcc
4561 aactcccttt tctccttcta tggtgatgat gagattgtaa gcacagacat aaagttggac
4621 ccagagaagc tgacagcaaa gctcaaggag tacgggctga aaccaacccg ccccgacaaa
4681 actgaagggc cccttgttat ctctgaagac ctggatggcc tgacattcct ccggagaact
4741 gtgacccgtg atccagctgg ctggtttgga aaattggaac aaagttcaat tcttaggcaa
4801 atgtactgga ccaggggtcc caaccatgaa gatccatttg aaacaatgat accacactcc
4861 caaagaccca tacaattgat gtccttgttg ggcgaggctg cactccacgg cccggcattc
4921 tatagcaaaa ttagcaagtt agtcattgca gagttgaagg aaggtggcat ggatttttac
4981 gtacccagac aagagccaat gtttagatgg atgagattct cagatctgag cacgtgggag
5041 ggcgatcgca atctggctcc cagttttgtg aatgaagatg gcgtcgagtg acgccaaccc
5101 atctgatggg tccgcagcca acctcgtccc agaggtcaac aatgaggtta tggctctgga
5161 gcccgttgtc ggtgccgcca ttgcggcacc tgtagcgggc caacaaaatg taattgaccc
5221 ctggattaga aataattttg tgcaagcccc tggtggagag ttcacagtat cccctagaaa
5281 cgctccaggt gaaatactat ggagcgcgcc cttgggccct gatctaaatc cctacctttc
5341 ccatttggct agaatgtaca atggttatgc aggtggtttt gaagtgcagg tgattctcgc
5401 ggggaacgcg ttcaccgccg ggaaggtcat atttgcagca gtcccaccaa attttccaac
5461 tgaaggcttg agccccagcc aggtcactat gttcccccac atagtggtag atgttaggca
5521 actagaacct gtgttgattc ccttacccga tgttaggaat aatttctatc attataacca
5581 atcaaatgac cccaccatta agttgatagc aatgttgtat acaccactta gggctaacaa
5641 tgctggggat gatgtcttca cagtctcttg ccgagttctc acgagaccat cccccgactt
5701 tgatttcata tttctagtgc cacccacagt tgagtcaaga actaaaccat tctctgtccc
5761 agttctaact gttgaggaga tgaccaattc aagattcccc attcctttgg aaaagttgtt
5821 cacgggtccc agcagtgcct ttgttgtcca accacaaaac ggtaggtgca cgactgatgg
5881 cgtgctccta ggcaccaccc aactgtctcc tgttaacatc tgcaccttta gaggagatgt
5941 cacccatatc acaggtagtc gtaactacac aatgaatttg gcttctcaaa attggagcaa
6001 ttatgaccca acagaagaaa tcccagcccc tctaggaact ccagattttg tggggaagat
6061 tcaaggcgtg ctcacccaaa ccacaagggc agatggctca acacgcggcc acaaagccac
6121 agtgtacact gggagcgccg actttgctcc aaaactgggt agagttcaat ttgaaactga
6181 cacagaccat gattttgaag caaaccaaaa cacaaagttc accccagttg gtgtcatcca
6241 agatggtggc accacccacc gaaatgagcc ccaacagtgg gtgctcccaa gttactcagg
6301 cagaaatact cctaatgtgc atctggcccc cgctgtagcc cccactttcc cgggtgagca
6361 acttctcttc tttagatcca ccatgcccgg atgcagcggg taccccaaca tggatttgga
6421 ctgtctgctc ccccaggaat gggtgcagta cttctaccaa gaggcagccc cagcacaatc
6481 tgatgtggct ctgctaagat ttgtgaaccc agacacaggt agggttttgt ttgagtgtaa
6541 gcttcataaa tcaggttatg ttacagtggc tcacactggc caacatgatt tggttatccc
6601 ccctaatggt tattttaggt ttgattcctg ggtcaaccag ttttacacgc ttgcccccat
6661 gggaaatgga acggggcgta gacgtgcact ataatggctg gagctttctt tgctggattg
6721 gcatctgatg tccttggctc tggacttggt tcccttatca atgctggagc tggggccatc
6781 aaccaaaaag ttgagtttga aaataacaga aaattgcaac aagcatcctt ccaatttagc
6841 agcaatctac aacaggcttc ctttcaacat gacaaagaga tgctccaagc acaaattgag
6901 gccaccaaaa ggctacaaca ggaaatgatg aaagttaagc aggcaatgct cctagagggt
6961 gggttctctg agacagatgc agcccgcggg gcaattaacg cccccatgac aaaagctttg
7021 gactggagcg ggacaaggta ctgggctccc gatgctagga ctacaacata caatgcaggc
7081 cgcttttcca cccctcaacc atcgggggca ctgccaggaa gagctaatct tagggatgct
7141 gtccctgctc ggggttcccc cagtaagtct tctaactctt ctactgctac ttctgtgtac
7201 tcaaatcaga ccacttcaac gagacttggt tctacagctg gttctggtac cagtgtctcg
7261 agcttcccgt caactgcaag gactaggagc tgggttgagg atcaaagtag gaatttctca
7321 cctttcatga ggggggccca caacatatcg tttgtcaccc caccatctag cagatcctct
7381 agccaaggca cagtctcaac cgtgcctaaa gagattttgg actcctggac tggcgctttc
7441 aacacgcgca ggcagccgct cttcgctcac attcgtacgc gaggggagtc acgggtgtaa
7501 tgtgaaaaga caaaattgat tatct
//