Typing tool
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Typing tool
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Complete norovirus genomes
| KX158280 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 86..5092
ORF2: 5073..6695
ORF3: 6695..7501
LOCUS KX158280 7512 bp RNA linear VRL 03-DEC-2016
DEFINITION Norovirus GII strain 13-39, complete genome.
ACCESSION KX158280
VERSION KX158280.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7512)
AUTHORS Nasheri,N., Ronholm,J. and Petronella,N.
TITLE Norovirus Genome sequencing and assembly
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7512)
AUTHORS Nasheri,N., Ronholm,J. and Petronella,N.
TITLE Direct Submission
JOURNAL Submitted (26-APR-2016) Bureau of Microbial Hazards, Health Canada,
251 Sir Frederick Banting Driveway, Ottawa, ON K1A 0K9, Canada
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 3.7.1
Assembly Name :: Isolate 13-39
Coverage :: 121x
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7512
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="13-39"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Canada"
/collection_date="2015"
/note="genotype: GII"
CDS 86..5092
/codon_start=1
/product="ORF1"
/protein_id="APE73902.1"
/translation="MAVTFKRALGARPKQPPPKEIPPRPPRPPTPELVKKIPPPPPNG
EDELVVSYSAKDGVSGLPELTTVRQPEETNTAFSVPPLNQRESRDAKEPLTGTIIEMW
DGEIYHYGLYVERGLVLGVHKPPAAISLAKVELAPLSLFWRPVYTPQYLISPDTLRRL
HGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDS
KLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILNILATCDWTFAGIVESLILLAELF
GVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMGGIGLVLGFTKEKIGKMLSSA
ASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIEDAVLDLEAIENNHMTT
LLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINSLLARIAAARSLVHRAKEE
LSSRPRPVVVMISGRPGIGKTHLARELAKKIAASLTGDQRVGLIPRNGVDHWDAYKGE
RVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDAIIITTNLANPA
PLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNAFSPDFSHIKLSLAPQG
GFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEYELQGPALTTFNFDRNKILAF
RQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQALKNIAIKKCQIVYNGSTYTLEADGK
GSVKVDKVQSATVQTNNELAGALHHLRCARIRYYVKCVQEALYSIIQIAGAAFVTTRI
AKRMNIQNLWSKPQVEDTEEMANKDGCLKPKDDEEFVVSSDDIKTEGKKGKNKSGRGK
KHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEEVAIARATEEDFCEE
EEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPEDFKPKGKLWADDDRSVDYNE
KLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAKEFFGVPIKQIQIHKSG
EFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPTGELMPLAARMGTHATMKIQG
RTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGNTVIC
ATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYL
GGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNVLEAAKKTIINVLEQTIDPPQKW
SFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEEGKNMTPVYT
GALKDELVKTDKVYGKVKKRLLWGSDLATMIRCARAFGGLMDELKAHCVTLPVRVGMN
MNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAALEIMVKFSPEPHLAQIVAED
LLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLLTLCALSEVTDLSPDIIQANS
LFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRT
VTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPFETMIPHSQRPIQLMSLLGEAALHGP
AFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE
"
CDS 5073..6695
/codon_start=1
/product="VP1"
/protein_id="APE73903.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6695..7501
/codon_start=1
/product="VP2"
/protein_id="APE73904.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSDTDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NFSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 ggcgtctaac gacgcttccg ctgccgctgt tgccaacagc aacaacgaca tcgcaaaatc
61 ttcaagtgac ggtgtgtttt ctaacatggc tgtcactttt aagcgggccc tcggggcgcg
121 gcctaaacag ccgcccccga aggaaatacc acccagaccc ccgcgaccac ccacaccaga
181 attggtcaaa aagatccctc ctcccccacc caacggggag gatgaactag tggtctctta
241 cagcgccaaa gatggcgttt ccggactgcc tgagctcacc actgtcagac aaccggaaga
301 aaccaacacg gcgttcagtg tccccccact caaccaaagg gagagcaggg acgccaagga
361 gccactgact ggaacaatca ttgaaatgtg ggatggagaa atctaccatt acggcctgta
421 cgtggagcga ggtcttgtac ttggtgtgca caagccaccg gcagccatta gccttgccaa
481 ggtcgagcta gcaccgctct ctttgttctg gagacctgta tacacccccc agtatctcat
541 ctctccagac actcttagga gattacatgg agagtcattc ccctacactg catttgacaa
601 caattgctac gccttttgtt gttgggtatt agacctaaac gactcatggc taagcaggag
661 aatgattcag agaacaacag gtttcttcag gccgtaccag gattggaaca ggaaacccct
721 ccccactatg gatgattcca aattaaagaa ggtagccaac atattcttgt gcactttgtc
781 ttcactattc accagaccca ttaaggacat aataggaaag ttgaaacctc ttaacatcct
841 taatattctg gctacatgtg attggacctt cgcaggcata gtggaatcct taatactctt
901 ggcagaactc tttggagttt tctggacacc cccagatgtg tctgcgatga tcgccccctt
961 gctaggtgat tatgaactgc aaggacctga ggaccttgca gtggaactgg tcccaatagt
1021 gatggggggg ataggtttgg tgctaggatt taccaaagag aaaatcggaa agatgctatc
1081 atccgctgca tccactttaa gagcttgtaa agaccttggt gcatacggac tggaaatctt
1141 aaaattggtc atgaagtggt tcttcccaaa gaaagaggaa gcaaatgaac tggctatggt
1201 gagatccatc gaggatgcag tactagacct cgaggcaatt gaaaacaacc acatgaccac
1261 cctactcaaa gacaaagaca gcttagcaac ctacatgaga acccttgacc ttgaggagga
1321 gaaagccaga aaactctcaa ccaaatctgc ttcacccgat attgtgggca caatcaactc
1381 tcttctggca agaatcgctg ctgcacgctc cctagtgcat cgggcgaaag aagagctctc
1441 cagcaggccg agacctgtcg ttgtgatgat atcgggaaga ccagggatag ggaaaactca
1501 ccttgccagg gagctggcca agaagatcgc ggcctccctc acaggggacc agcgtgtggg
1561 tcttatccca cgcaatggtg tcgaccactg ggacgcatac aagggcgaaa gagttgtcct
1621 atgggacgac tatggaatga gcaaccccat ccatgatgcc ctcaggttgc aggagcttgc
1681 tgacacttgc ccccttacgc taaattgtga cagaattgag aacaaaggga aagtctttga
1741 cagtgatgcc ataattatca ccaccaatct ggccaaccca gcaccactgg attatgtcaa
1801 ctttgaagcg tgctcgagac gcattgactt cctcgtgtac gcagaagccc ctgaggtgga
1861 gaaggcaaag cgcgacttcc caggtcaacc tgacatgtgg aagaacgctt tcagtcctga
1921 cttctcacac ataaaactgt cattggctcc acagggtggt tttgacaaga acggcaacac
1981 cccgcatgga aaaggggtca tgaagaccct caccactggc tccctcatcg cccgagcatc
2041 agggttactc catgagaggc tagatgaata tgaactgcaa ggcccagccc tcaccacttt
2101 caactttgac cgcaacaaga tacttgcttt tagacagctt gctgctgaaa acaagtatgg
2161 gctgatggac acaatgagag ttggaaaaca gctcaaggat gtcaagacca tgtcagacct
2221 caaacaagca ctcaagaaca tcgcgatcaa gaagtgccag atagtgtaca atggtagcac
2281 ctacacactt gaggctgatg gcaagggtag tgtgaaagtt gacaaagtgc agagtgccac
2341 tgtgcagacc aacaatgaac tagccggtgc cctacaccac ctaaggtgcg ctagaatcag
2401 atactatgtt aagtgcgtcc aggaggcact atattccatc atccaaatcg ctggggctgc
2461 attcgtcacc acgcgcatcg ctaagcgcat gaatatacag aatctctggt ccaagccaca
2521 ggtggaagac acagaagaga tggccaacaa agatggttgc ctaaaaccca aagatgatga
2581 agagtttgtc gtctcatccg acgacatcaa aactgagggc aagaaaggga agaacaagtc
2641 cggccgtggc aagaagcaca cagccttctc aagcaaaggg ctcagtgatg aggagtacga
2701 tgagtacaag agaatcagag aagaaaggaa tggtaagtac tccatagaag agtaccttca
2761 ggacagagac aggtactacg aggaggtggc cattgccagg gcaaccgaag aggacttctg
2821 tgaagaagaa gaggccaaaa tccggcagag aattttcaga ccaacaagga aacaacgcaa
2881 agaagagagg gcctctctcg gcttggtcac aggctctgaa atcaggaaga gaaacccaga
2941 agacttcaaa cccaagggaa agttgtgggc tgatgatgac agaagtgttg actacaatga
3001 gaaactcaac tttgaggccc caccaagcat ctggtcgcgg atagtcaact ttggttcagg
3061 ctggggcttc tgggtctccc ccagtctgtt tataacatca acccatgtca taccccaagg
3121 tgcaaaagag ttcttcggag tccctatcaa gcaaatccag atacacaaat caggtgaatt
3181 ctgccggttg agattcccaa agccaattag aactgatgtg acgggcatga ttctagaaga
3241 aggtgcgccc gaggggaccg tggccacact gctcatcaag agaccaactg gagagctcat
3301 gcctctggca gccagaatgg ggacccatgc aaccatgaaa attcaggggc gcacagttgg
3361 agggcaaatg ggtatgctcc tgacaggatc caacgccaag agtatggacc taggcacaac
3421 accaggcgac tgcggctgcc cctacatcta caagaggggg aatgactacg tggtcatagg
3481 agtccatacg gccgctgccc gtggaggaaa cactgtcata tgtgccaccc aggggagtga
3541 gggagaagcc acacttgaag gaggtgacag taaagggaca tactgtggcg caccaatctt
3601 gggcccaggg agcgctccga agctcagtac caagactaag ttttggagat catccacaac
3661 accactccca cctggcacct acgaaccagc ctacctcggt ggcagagacc ctagagtcaa
3721 aggtggccct tcattgcaac aagttatgag ggaccagctg aagccattca cagaacccag
3781 aggcaaacca ccaagaccaa atgtgttgga agctgccaag aaaaccatca tcaatgtcct
3841 tgagcaaaca attgatccac cccaaaaatg gtcatttgcg caagcttgcg catcccttga
3901 caaaaccacc tccagcggcc acccgcacca catgcggaaa aacgactgtt ggaatgggga
3961 gtccttcaca ggaaaattgg ctgatcaagc ctccaaggcc aacctaatgt ttgaagaggg
4021 aaagaacatg actccagttt acacaggtgc acttaaagat gagttggtaa agaccgataa
4081 agtttatggt aaggtcaaga agaggcttct gtggggttca gatctggcga ccatgatacg
4141 gtgcgcccga gcttttggag gccttatgga tgaactcaag gcacactgtg tcacacttcc
4201 tgtcagagtt ggtatgaaca tgaatgagga tggccccatc atctttgaga agcactccag
4261 atatagatat cactatgatg ctgattattc ccggtgggac tcaacacaac aaagggatgt
4321 gctagcagca gcactagaaa tcatggttaa gttctctcca gaaccacacc tggcccagat
4381 agttgcagaa gacctccttt cccctagcgt aatggatgta ggtgactttc aaatatcaat
4441 aagtgagggt ctcccctctg gggtaccttg tacctcccag tggaattcca tcgcccactg
4501 gctcctcact ctgtgtgcac tctctgaagt cacggacctg tcccctgata tcattcaggc
4561 caactccctt ttctccttct atggtgatga tgagattgta agcacagaca taaagttgga
4621 cccagagaag ctgacagcaa aactcaagga gtacgggctg aaaccaaccc gccccgacaa
4681 aactgaagga ccccttgtta tctctgaaga cctggatggc ctgacattcc tccggagaac
4741 tgtgacccgt gatccagctg gctggtttgg aaaattggaa caaagttcaa ttctcaggca
4801 aatgtactgg accaggggtc ccaaccatga agatccattt gaaacaatga taccacactc
4861 ccaaagaccc atacaattga tgtccttgct gggcgaggct gcactccacg gcccggcatt
4921 ctatagtaaa attagcaaat tagtcattgc agagttgaag gaaggtggca tggattttta
4981 cgtgcccaga caagagccaa tgttcagatg gatgagattc tcagatctga gcacgtggga
5041 gggcgatcgc aatctggctc ccagttttgt gaatgaagat ggcgtcgagt gacgccaacc
5101 catctgatgg gtccgcagcc aacctcgtcc cagaggtcaa caatgaggtt atggctctgg
5161 agcccgttgt tggtgccgcc attgcggcac ctgtagcggg ccagcaaaat gtaattgacc
5221 cctggattag aaataatttt gtacaagccc ctggtggaga gtttacagta tcccctagaa
5281 acgctccagg tgaaatacta tggagcgcgc ccttgggccc tgatctaaat ccctacctat
5341 cccatttggc cagaatgtac aatggttatg caggtggttt tgaagtgcag gtaattctcg
5401 cggggaacgc gttcaccgcc gggaaggtca tatttgcagc agtcccacca aattttccaa
5461 ctgaaggctt gagccccagc caggtcacta tgttccccca tatagtagta gatgttaggc
5521 aactagaacc tgtgttgatt cccttacccg atgttaggaa taatttctat cattacaatc
5581 aatcaaatga ccccaccatt aagttgatag caatgttgta tacaccactt agggctaata
5641 atgctgggga tgatgtcttc acagtttctt gccgagttct cacgagacca tcccccgatt
5701 ttgatttcat atttctagtg ccacccacag ttgagtcaag aaccaaacca ttctctgtcc
5761 cagttttaac tgttgaggag atgaccaatt caagattccc cattcctttg gaaaagttgt
5821 tcacgggtcc cagcagtgcc tttgttgtcc aaccacaaaa cggcaggtgc acgactgatg
5881 gcgtgctcct aggcaccacc caactgtctc ctgtcaacat ctgcaccttc agaggagatg
5941 tcacccatat cacaggtagt cgtaactaca caatgaattt ggcttctcaa aattggaaca
6001 attatgaccc aacagaagaa atcccagccc ctctaggaac tccagatttt gtggggaaga
6061 ttcaaggcgt gctcacccaa accacgagga cagatggctc aacacgtggc cacaaagcta
6121 cagtgtacac tgggagcgcc gactttgctc caaaactggg tagagttcaa tttgaaactg
6181 acacagacca tgattttgaa gctaaccaaa acacaaagtt caccccagtt ggtgtcatcc
6241 aagatggtag caccacccac cgaaatgaac cccaacagtg ggtgctccca agttactcag
6301 gcagaaatac tcctaatgtg catctggccc ctgctgtagc ccccactttt ccgggtgagc
6361 aacttctctt cttcagatcc accatgcccg gatgcagcgg gtaccccaac atggatttgg
6421 actgtctgct cccccaggaa tgggtgcagt acttctacca agaggcagcc ccagcacaat
6481 ctgatgtggc tctgctaaga tttgtgaatc cagacacagg tagggttttg tttgagtgta
6541 agcttcataa atcaggctat gttacagtgg ctcacactgg ccaacatgat ttggttatcc
6601 cccccaatgg ttattttagg tttgattcct gggtcaacca gttttacacg cttgccccca
6661 tgggaaatgg aacggggcgt agacgtgcac tataatggct ggagctttct ttgctggact
6721 ggcatctgat gtccttggct ccggacttgg ttccctcatc aatgctgggg ctggggccat
6781 caaccaaaaa gttgagtttg aaaataacag aaaattgcaa caagcatcct tccaatttag
6841 cagcaatcta caacaggctt cctttcaaca tgacaaagag atgctccaag cacaaattga
6901 ggccaccaaa aggctacaac aggaaatgat gaaagttaag caggcaatgc tcctagaggg
6961 tgggttctct gacacagatg cagcccgcgg ggcaatcaac gcccccatga caaaagcttt
7021 ggactggagc gggacaaggt actgggctcc cgatgctagg actacaacat acaatgcagg
7081 ccgcttttcc acccctcaac catcgggggc actgccagga agagctaatc ttagggatgc
7141 tgtccctgct cggggttcct ccagcaagtc ttctaatttt tctactgcta cttctgtgta
7201 ttcaaatcaa actacttcaa cgagacttgg ttctacagct ggttctggta ccagtgtctc
7261 gagcttcccg tcaactgcaa ggactaggag ctgggttgag gatcaaagta ggaatttgtc
7321 acctttcatg aggggggccc acaacatatc gtttgtcacc ccaccatcta gcagatcctc
7381 tagccaaggc acagtctcaa ccgtgcctaa agaggttttg gactcctgga ctggtgcttt
7441 caacacgcgc aggcagccac tcttcgctca cattcgtaag cgaggggagt cacgggcgta
7501 atgtgaaaag ac
//