Typing tool
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Typing tool
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Complete norovirus genomes
| MN938461 | GI.4 | |
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| GI.P4 |
ORF1: 1..5358
ORF2: 5342..6976
ORF3: 6976..7602
LOCUS MN938461 7602 bp RNA linear VRL 20-JAN-2020
DEFINITION Norovirus GI isolate 34 nonstructural polyprotein (ORF1), VP1
(ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MN938461
VERSION MN938461.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7602)
AUTHORS Huang,Z. and Ou,X.
TITLE Full-genome of GII.P21-GII.13 recombinant norovirus in an outbreak
in Changsha city, China
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7602)
AUTHORS Huang,Z. and Ou,X.
TITLE Direct Submission
JOURNAL Submitted (14-JAN-2020) Microbiological laboratory, Changsha Center
for Disease Control and Prevention, beside the liuyang river
bridge, No. 509, wanjiali second north Road, Changsha, Hunan
410000, China
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 3.13.0
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7602
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="34"
/isolation_source="Anal swab"
/host="Homo sapiens"
/db_xref="taxon:122928"
/country="China: Changsha"
/collection_date="01-Apr-2019"
/note="genotype: GI.P4-GI.4/34/Changsha/2019/CHN"
gene 1..5358
/gene="ORF1"
CDS 1..5358
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QHH18440.1"
/translation="MKMASKDVVAATAASAENTSDNSESIKNRFFTRLKNLGSNNKPI
KIENTHMALNLISRGPSPAPQERPPKDQRDKPPRNVTETQQAMGWIDPPVDQNLPTWE
ELSQTEKQEILKNNSNWFDAGGLAPASIPSGYVKNTEQQPPDHQVKWSVNNGVDLGVD
SLTTVPGPTWNLCPMPPIDQRNNGPAKEPLIGDMIEFYEGHIYHYAIYIGQGKTVGVH
SPQAAFSIARITIHPIAAWWRVCYVPTPDQRLSYDQLKELENEPWPYAAVTNNCYEFC
CRILNLQDTWLERRLVTSSRFNHPTQDWSRDTPDFQQDSKLEIVRDAVLAAINGLVSK
PFKDLLNKLKPLNVLNLLSNCDWTFMGVVETIILLMELFGIFWNPPDVSSFIASLLPD
MHLQGPEDLAKDLIPLVLGGVGLAIGFTKDKVTKVMKSAVEGLRAATQLGQYGLEIFA
VLKKYFFGGDQTEKTLKDIETAVIDMEVISTTAVTQLVRDKQAARTYMNILDAEEEKA
RKLSVRHADPHVVSTTNALISRISLARSALAKAQAEMTNRVKPVVIMMCGPPGIGKTK
AAEYLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMSKIADDCNKLQA
IADTAPLTLNCDRIEKKGLQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVYCTA
PDVEQTRRTNPGDTGALKDCFKNDFSHLKMELAPQGGFDNQGNTPFGKGTMRPTTLNR
LLIQAVALTMERQDEFQMQGQVYDFDADRVSAFTSLARANGLGLISMASLGKKLRGVD
SVQGLKNALSGYTITPCSIKWQARVYDIESDGTNVHIKENTSAQTQRQQSIDTAALAL
TRLKAARAAAYAACIQSAITTILQMAGSAIVINRAVKRMFGAHPSTIALEGPPREHRC
RAHLAKAAGGGPIGHDDVIDKYGLCETEEEGTSEEMNVELPTATSEGKNKGKTKKGRG
RRANYNAFSRRGLSDEEYEEYKKIREEKNGNYSIQEYLEDRQRYEEELAEVQAGGDGG
IGETEMEIRHKIFYKSKKGRQNERRQLGLVTGSDIRKRKPIDWTPPKNDWADDNREVD
YNEKLSFEAPPTLWSRVVRFGSGWGFWVSPTVFITTTHVIPSGVREFFGEPIESIAIH
RAGEFTQFRFSRKVRPDLTGMVLEEGCPEGVVCSILIKRDSGELLPLAVRMGAIASMK
IQGRLVHGQSGMLLTGANAKGMDLGTLPGDCGAPYVYKRNNDWVVCGVHAAATKSGNT
VVCAVQAGEGETTLEGGDKGHYAGHEIIKHSKGPALSTKTKFWRSTPEPLPPGVYEPA
YLGGRDPRVKGGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVTSMLEQTMDTPT
PWSFSDACQSLDKTTSSGHPYHKRKNDDWNGTSFIGELGEQAAHANNMYELGKSMKPL
YTAALKDELVKPEKVYQKIKKRLLWGADLSTVIRAARAFGPFCDAIKPHVIKLPIKVG
MNSIEDGPMIYAEHAKYKNHFDADYSAWDSTQNRQIMTESFAIMCRLTASPELASVVA
KDLLAPSEMDVGDYIIRVKEGLPSGFPCTSQVNSINHWLITLCAMSEVTGLSPDVIQS
QSYFSFYGDDEIVSTDIDFDPARLTQVLKEYGLRPTRPDKSEGPIILRRQVDGLVFLR
RTISKDAAGFQGRLDRGSIERQLWWTRGPNHDDPSETLIPHPQRKVQLISLLGEASLH
GEKFYRKISSKVIQEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFVNDDG
V"
mat_peptide 1..1188
/gene="ORF1"
/product="p48"
mat_peptide 1189..2277
/gene="ORF1"
/product="NTPase"
mat_peptide 2278..2880
/gene="ORF1"
/product="p22"
mat_peptide 2881..3288
/gene="ORF1"
/product="VPg"
mat_peptide 3289..3831
/gene="ORF1"
/product="Pro"
mat_peptide 3832..5355
/gene="ORF1"
/product="RdRp"
gene 5342..6976
/gene="ORF2"
CDS 5342..6976
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QHH18441.1"
/translation="MMMASKDATPSADGATGAGQLVPEVNTADPIPIDPVAGSSTALA
TAGQVNLIDPWIINNFVQAPQGEFTISPNNTPGDVLFDLQLGPHLNPFLSHLSQMYNG
WVGNMRVRVVLAGNAFTAGKVIICCVPPGFQSRTLSIAQATLFPHVIADVRTLDPVEV
PLEDVRNVLYHNNDTQPTMRLLCMLYTPLRTGGASGGTDSFVVAGRVLTCPGPDFNFL
FLVPPTVEQKTRPFTVPNIPLKYLSNSRIPNPIEGMSLSPDQTQNVQFQNGRCTIDGQ
PLGTTPVSVSQLCKFRGRITSGQKVLNLTELDGSPFMAFAAPAPAGFPDLGSCDWHIE
MSKIPNSSTQNNPIVVNSVKPNSQQFVPHLSSITLDDNVSSGGDYIGTIQWTSPPSDS
GGVNTNFWKIPDYGSSLAEASQLAPAVYPPGFNEVIVYFMASIPGPNQSGSPNLVPCL
LPQEYITHFISEQAPIQGEAALLHYVDPDTNRNLGEFKLYPGGYLTCVPNSSSTGPQQ
LPLDGVFVFASWVSRFYQLKPVGTAGPARGRLGVRR"
gene 6976..7602
/gene="ORF3"
CDS 6976..7602
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QHH18442.1"
/translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQAQRYQQDLTLQQN
SFNHDKEMLGYQVEMSNKLLAKNLNTRYSLLQAGGLSPSDAARAVAGAPVTRLVDWGG
VRVAAPQSSATTLRSGNFMAVPLPAQPKQKPLASEGYSNPAYDPMQRTASWVQSQNSS
RTWSPYHRQALQTVWVTPPGSTSSSSVSTAPRGYFNTDRLPLFANLRR"
ORIGIN
1 atgaagatgg cgtcgaaaga cgtcgttgca gctactgctg ctagtgctga aaacactagt
61 gacaatagtg aatctataaa gaaccgtttc ttcacaagat tgaagaattt aggttctaat
121 aataaaccta taaaaattga aaacacccat atggccctca acttgattag tagagggcca
181 tctccagccc cacaagaaag gccccccaag gatcagaggg ataaaccccc aaggaatgtg
241 actgaaactc aacaggcaat ggggtggatt gacccccccg tggatcagaa cctaccaacc
301 tgggaggaac tgagccaaac agaaaaacaa gagatactca agaacaattc aaactggttt
361 gatgctggtg ggttggcacc agctagtatc ccttctggtt atgtgaaaaa cacagagcaa
421 caaccccctg accaccaggt caaatggagt gtaaacaacg gggttgacct gggggtggac
481 agtctaacta ctgtgccagg tccaacatgg aacttgtgcc ccatgccacc aattgaccaa
541 cgaaacaatg gccctgcaaa agagccactt attggtgata tgatagaatt ttatgaagga
601 cacatttacc attatgcaat atatattggc caaggaaaaa ctgttggggt ccactcacct
661 caagcggctt tttcaatagc cagaataacc atacacccca ttgctgcttg gtggagggtt
721 tgttatgtgc caacacctga tcagagatta agttatgacc aactcaaaga gcttgagaat
781 gagccatggc catatgctgc agtcaccaat aattgctatg agttctgctg cagaatcctc
841 aatctgcagg atacttggtt ggagcgccgt ctagtcacgt ccagtcgttt taaccatcca
901 acacaagact ggtctaggga cacgcctgac tttcaacaag atagtaaact ggaaatagtc
961 agggatgctg tgcttgctgc aattaatggc ttagtatcaa aaccctttaa agatctccta
1021 aataaactta agccactcaa tgtgcttaac ctactctcca actgcgattg gacatttatg
1081 ggagtagtgg agacaataat attgcttatg gaactgtttg ggatcttctg gaacccccct
1141 gatgtgtcca gcttcatagc ctcactacta cctgacatgc acctgcaagg accagaagat
1201 ctggctaaag atttgatacc actggtgttg gggggtgtag ggcttgcaat tggatttacc
1261 aaggacaagg ttacaaaggt catgaagagc gctgttgaag gacttagggc agccacacaa
1321 ttgggccagt atggtctaga gatatttgca gtcttaaaga aatacttctt tggcggagac
1381 caaacagaga agactttaaa ggacattgag acagccgtaa ttgacatgga ggtcatttca
1441 acaactgctg tcactcaatt agtcagggac aagcaggctg cccgaaccta catgaatatc
1501 ttggatgccg aggaagaaaa ggcaagaaag ctttcagtca gacatgcaga cccccatgtc
1561 gtgtccacga ctaatgccct gatctcacgc atttctttgg ctcgctctgc acttgctaag
1621 gcacaagctg agatgactaa cagagttaaa ccagtggtaa taatgatgtg tggcccccca
1681 ggcataggca agacaaaggc agctgagtat cttgctaaga gattggctaa tgagatacgg
1741 cctggaggaa aagtgggtct cgttccaagg gaggctgtgg atcactggga tggatatcat
1801 ggtgaagagg ttatgctatg ggatgattat ggtatgtcaa aaatagccga tgactgtaat
1861 aagttgcagg ccatagccga cacagctcca ctcaccttga attgtgaccg gattgagaag
1921 aaagggttac aattcgtttc tgatgccata gtgataacaa caaatgcccc aggtccagcc
1981 cctgttgact ttgtcaatct tggcccagtg tgccggcgtg tagacttcct ggtttattgc
2041 accgcacctg acgttgaaca aacacgtcgc accaaccctg gagacactgg agcccttaag
2101 gattgtttca aaaatgactt ctcccatcta aaaatggagt tggccccaca gggcgggttt
2161 gacaatcaag ggaacacccc atttggcaaa gggaccatgc gacctaccac gttaaaccgt
2221 cttctcatac aagctgtggc gctaaccatg gagcgtcagg atgaattcca gatgcagggt
2281 caagtgtatg attttgacgc tgacagggta tccgctttca ccagtctagc aagagccaat
2341 ggtctgggtc tcattagcat ggcctctctg ggaaagaaat tgaggggtgt ggactcagtc
2401 caaggcctca agaatgcatt atcaggctac accataaccc cttgtagcat aaaatggcaa
2461 gccagagtgt atgatattga atcggatggc actaatgtac acataaagga aaacacttca
2521 gcccagacac aacgccagca gtcaattgac acagcagctc tagcactcac tagacttaag
2581 gcagcacggg cagcagcgta tgcagcttgc atacaaagtg caataacaac tatcttgcag
2641 atggctgggt cagccatcgt tataaatcgt gctgtcaaaa ggatgtttgg ggcacaccca
2701 agcaccatag cccttgaagg accaccaaga gaacaccggt gtagagctca cctggccaaa
2761 gctgcaggtg gcggaccaat aggtcatgat gatgtcattg ataagtatgg tctatgtgag
2821 actgaagaag agggcactag tgaggagatg aatgtggagc ttcccaccgc tacttctgag
2881 ggtaaaaata aaggtaaaac caagaaagga agaggcagaa gagccaatta taatgctttt
2941 tcaaggcgag gtctgagtga tgaagaatac gaggagtata agaagatcag ggaagaaaag
3001 aatggtaact acagtattca ggaatacctt gaagacagac aacgctatga ggaagaactc
3061 gcagaagtgc aagctggtgg tgatggaggc attggtgaga cagagatgga gatccggcac
3121 aagatcttct ataaatccaa aaagggtcgc caaaatgaac gccgccagct aggattggtc
3181 actggtagtg acattagaaa gagaaaacca attgattgga ccccccccaa gaatgattgg
3241 gcagatgaca acagggaagt ggactataat gaaaaactca gttttgaagc cccaccaacc
3301 ctctggagcc gggttgtgag atttggctct gggtggggct tttgggtgag cccgactgtt
3361 tttatcacca ctacccacgt tataccatct ggagtgcgtg aattctttgg agaacccatc
3421 gagtccattg caatccaccg tgctggtgag tttacacaat tcagattttc acgcaaagtc
3481 cgcccagatt tgactggaat ggtgttggag gaaggctgcc ctgagggtgt tgtgtgttcc
3541 atcctcatta aacgtgactc tggtgagctg ctaccccttg ctgtccgaat gggcgctata
3601 gcgtccatga agatccaagg gaggttagtg catggtcaat ctgggatgct gcttactggg
3661 gccaacgcca aggggatgga cttgggcacc ctaccaggtg attgtggtgc cccttatgtg
3721 tacaaaagga acaatgattg ggtggtttgt ggtgtgcatg cagctgccac gaaatcaggc
3781 aacactgtag tgtgtgctgt ccaggctggg gagggtgaaa ccaccttaga gggaggtgat
3841 aaaggtcact atgctggtca tgagataatc aagcacagca agggcccagc tttatcaacc
3901 aagaccaagt tctggaggtc aacccctgaa ccactgccgc caggtgttta tgaaccagca
3961 taccttgggg gccgtgaccc aagggtaaaa ggtggacctt ccttacaaca agtcctgcgt
4021 gaccagctga aaccgtttgc tgagccacga ggtcgaatgc cagaacctgg cctacttgag
4081 gcagccgtcg aaactgtcac atccatgctt gaacaaacaa tggacacacc aaccccctgg
4141 tctttctctg atgcatgcca gtcactcgac aaaaccacaa gttcggggca cccataccat
4201 aaaaggaaaa atgatgattg gaatggaact tcattcattg gggagcttgg agaacaggcg
4261 gcacatgcta acaacatgta tgagttaggc aagtccatga aaccacttta tactgcagcc
4321 ctaaaagatg agctagtcaa gcctgagaaa gtctatcaaa agatcaagaa gaggctcctc
4381 tggggtgctg atctctcaac agttataaga gctgccagag cctttggacc attttgtgat
4441 gccataaagc cccatgtcat taaactcccc atcaaagttg gtatgaactc catagaagat
4501 ggcccaatga tctatgcaga acatgcaaag tataagaatc attttgatgc agactattcg
4561 gcctgggatt ctacacaaaa tagacagatc atgactgagt cctttgcaat catgtgtcgc
4621 cttacggcgt cacctgaatt ggcctctgtt gtagccaaag atttacttgc accctcagaa
4681 atggatgttg gtgactacat catccgtgtg aaggaaggct tgccttcagg attcccttgc
4741 acgtcacagg tgaacagtat aaatcattgg ttgatcacat tgtgtgctat gtctgaagtc
4801 acaggcttat cacccgatgt catacaatcc cagtcttact tttccttcta tggtgatgat
4861 gaaatagtct caacagatat tgattttgac cccgcccgcc tcacacaagt gcttaaagaa
4921 tacggattga gacccacccg accagacaag tctgaaggac ctattatact tagaagacag
4981 gtggatggcc ttgttttctt aaggaggaca atctcaaaag atgctgcggg cttccagggg
5041 aggctggata ggggctcaat tgaaaggcag ctctggtgga ctcgaggtcc taaccatgat
5101 gaccccagtg agactctaat cccacacccc cagaggaaag ttcaacttat atcccttctt
5161 ggtgaggctt ccctccatgg tgagaaattt tacaggaaaa tctccagtaa agtcatacag
5221 gagataaaga ctggtggttt ggaaatgtat gtgccaggct ggcaggccat gttccgctgg
5281 atgcgcttcc atgacctcgg attgtggaca ggagatcgca atctcctgcc cgaattcgta
5341 aatgatgatg gcgtctaagg acgctacacc aagcgcagat ggcgccactg gcgccggcca
5401 gctggtaccg gaggttaata cagctgaccc tatacccatt gaccctgtgg ctggctcctc
5461 tacagcactt gccactgcag gccaagttaa tttgattgat ccctggataa tcaataattt
5521 tgtgcaagcc ccccagggtg aattcacaat atccccaaac aatacccccg gtgatgtgct
5581 ttttgatttg cagttaggac ctcatttaaa ccctttcctc tcccatctct ctcaaatgta
5641 taatggctgg gtgggcaaca tgcgagtgcg tgttgtcttg gctggtaatg cttttacggc
5701 tgggaaggtt ataatttgtt gtgtcccccc tggctttcaa tctcgtactc tttccatagc
5761 tcaggctact ttattccccc acgttattgc tgatgttagg acccttgacc ctgtagaagt
5821 gcctcttgaa gatgtcagga acgtgttgta tcataacaat gacacccaac ccaccatgcg
5881 cctcctttgc atgctgtaca cccctctccg caccggggga gcgtctggtg ggactgattc
5941 tttcgtggta gctgggcgtg tgcttacttg cccaggccct gactttaact ttttattctt
6001 ggtccctccc acagtcgagc aaaagactcg ccctttcact gtgcccaata tccctttgaa
6061 gtatctgtct aactccagaa tcccaaaccc cattgaaggt atgtcattgt cacctgacca
6121 gactcaaaat gtccaattcc aaaatggcag gtgcacaatt gacggtcagc ccctcgggac
6181 tacacctgtc tcggttagcc agttatgtaa gttcaggggt aggattacat ctggacaaaa
6241 ggtgctcaat ttgacagagt tggatggttc accttttatg gcctttgctg cccctgcccc
6301 tgcgggcttc ccagaccttg ggtcctgtga ttggcatatt gagatgagta aaatcccaaa
6361 ttctagcacc cagaataacc caatagtagt caattctgtc aagcccaata gtcaacagtt
6421 tgtccctcac ttgtcaagta tcacccttga tgataatgtc tctagtgggg gtgattatat
6481 tggtactata caatggacct ctcctccttc tgattctggc ggtgtcaata caaacttttg
6541 gaaaattcct gactatgggt ctagtttggc tgaagcttca cagttggccc ccgctgtcta
6601 tccacctggt ttcaatgaag tgattgtgta tttcatggca tctatacctg gccccaatca
6661 atctgggtcc cctaacttgg tgccatgcct gctcccccag gaatatataa cacatttcat
6721 tagtgagcag gcccccattc agggtgaggc tgccttactc cattatgtgg acccagatac
6781 caatcgtaat ttgggtgagt ttaaattgta tcctggtggt tatttaacct gtgttcctaa
6841 tagttctagt actggacctc aacaacttcc tcttgatggt gtttttgtct ttgcttcttg
6901 ggtctctaga ttttatcaat taaagcctgt gggaacagcc ggaccggcta gaggtaggct
6961 tggtgtccgt agataatggc ccaagccatt ataggagcca ttgccgcctc tgcagccggc
7021 agcgccctgg gtgctggcat ccaggccggt gctgaagctg cattacaggc tcagagatat
7081 caacaagatt tgactttgca gcaaaattct tttaatcatg ataaagaaat gttaggctat
7141 caagtggaaa tgtccaataa gttgttagct aagaatctta atacccgcta ttctcttctc
7201 caggcgggtg gcctctctcc ctctgatgcg gctagggctg tggccggggc ccctgtcact
7261 aggctggtcg actggggtgg agtgcgtgtt gcagcaccac aatcatctgc cactacattg
7321 agatctggca atttcatggc agtaccgctc ccagctcagc caaagcagaa gccccttgcc
7381 agtgagggtt attccaaccc cgcctatgac cctatgcagc gtacagcttc ttgggttcaa
7441 tctcaaaatt ccagtcggac ttggtctcct taccataggc aggccctcca gactgtatgg
7501 gtgacccccc ctggctccac ctcttcttct tctgtttcta ccgcccctcg ggggtacttt
7561 aatacagata ggttgcctct gttcgcaaac ttgaggcgtt aa
//