Typing tool
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Typing tool
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Complete norovirus genomes
| MT158858 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7509
LOCUS MT158858 7509 bp RNA linear VRL 08-APR-2021
DEFINITION Norovirus GII isolate xbfx1926 nonstructural polyprotein (ORF1),
VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MT158858
VERSION MT158858.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7509)
AUTHORS Li,Q., Yao,P., Jiang,J., Mao,X., Wang,F. and Zhang,W.
TITLE Molecular identification of emergent GII.Pe-GII.4 and
GII.P17-GII.17 norovirus genotypes, China, 2019
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7509)
AUTHORS Li,Q., Yao,P., Jiang,J., Mao,X., Wang,F. and Zhang,W.
TITLE Direct Submission
JOURNAL Submitted (08-MAR-2020) Performance management office, Shanghai
Public Health Clinical Center, No. 2901 Caolang Road, Shanghai
201508, China
COMMENT ##Assembly-Data-START##
Sequencing Technology :: Sanger dideoxy sequencing
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7509
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="xbfx1926"
/isolation_source="Anal swab"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="China"
/collection_date="31-Oct-2019"
/note="genotype: GII.P31(GII.Pe)-GII.4-Sydney_2012"
gene 1..5100
/gene="ORF1"
CDS 1..5100
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QII23017.1"
/translation="MKMASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARP
KQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYNAKDGVSGLPELTTVRQPE
ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS
LAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED
LAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLST
KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTM
SDLKQALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGC
LKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDL
ATMVRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 1..990
/gene="ORF1"
/product="p48"
mat_peptide 991..2088
/gene="ORF1"
/product="NTPase"
mat_peptide 2089..2625
/gene="ORF1"
/product="p22"
mat_peptide 2626..3024
/gene="ORF1"
/product="VPg"
mat_peptide 3025..3567
/gene="ORF1"
/product="Pro"
mat_peptide 3568..5097
/gene="ORF1"
/product="RdRp"
gene 5081..6703
/gene="ORF2"
CDS 5081..6703
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QII23018.1"
/translation="MKMASSDVNPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWALPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6703..7509
/gene="ORF3"
CDS 6703..7509
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QII23019.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANFRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgctgttg ccaacagcaa caacgacatc
61 gcaaaatctt caagtgacgg tgtgttttcc aacatggctg tcacttttaa gcgggccctc
121 ggggcgcggc ctaaacagcc gcccccgaag gaaataccac ccagaccccc gcgaccaccc
181 acaccagaat tggtcaaaaa gatccctcct cccccaccca acggggagga tgaactagtg
241 gtctcttaca acgccaaaga tggcgtttcc ggactgcctg agctcaccac tgtcagacaa
301 ccggaagaaa ccaacacggc gttcagtgtc cccccactca accaaaggga gagcagggac
361 gccaaggagc cactaactgg aacaatcatt gaaatgtggg atggagaaat ctaccattac
421 ggcctgtacg tggaacgagg tcttatactt ggtgtgcaca agccaccagc agccatcagc
481 ctcgctaagg tcgagctggc accgctctct ttgttctgga gacctgtgta caccccccag
541 taccttatct ctccagacac tcttaggaga ttacatggag agtcattccc ctacactgca
601 tttgacaaca attgctacgc cttttgttgt tgggtattgg acctaaacga ctcatggcta
661 agcaggagaa tgattcagag aacaacaggc ttcttcaggc cgtaccagga ttggaacagg
721 aaacccctcc ccactatgga tgactccaaa ttaaagaagg tagccaacat attcttgtgc
781 actttgtctt cactgttcac caggcccatc aaggacataa tagggaagtt gaaacctctc
841 aacatcctta atattctggc tacatgtgat tggaccttcg caggcatagt ggaatcctta
901 atactcttgg cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatc
961 gcccccttgc taggtgattt tgaactgcaa ggacccgagg accttgcagt ggaactggtc
1021 ccaatagtga tgggggggat aggtttggtg ctaggattta ccaaagagaa gatcggaaag
1081 atgttgtcat ccgctgcatc cactttaaga gcttgcaaag accttggtgc atacggactg
1141 gaaatcttaa aactggtcat gaagtggttc ttcccaaaga aagaggaagc aaatgaactg
1201 gccatggtga gatccatcga ggatgcagta ctagacctcg aggcaattga aaacaaccac
1261 atgaccaccc tgctcaaaga caaagacagc ttgacaacct acatgagaac ccttgacctt
1321 gaggaggaga aagccagaaa actctcaacc aaatctgctt cacccgatat tgtgggcaca
1381 atcaactctc ttctggcaag aatcgctgct gcacgctccc tagtgcatcg ggcgaaagaa
1441 gagctctcca gcaggccgag acctgtcgtt gtgatgatat cgggaagacc agggataggg
1501 aaaactcacc ttgccaggga gttggccaag aagattgcgg cctccctcac aggggaccag
1561 cgtgtgggcc ttatcccacg caatggtgtc gaccactggg acgcatataa gggcgaaagg
1621 gtcgtcctat gggacgacta tggaatgagc aaccccatcc atgatgccct taggttgcag
1681 gagcttgctg acacttgccc cctcacgcta aattgtgaca gaattgagaa caaaggaaaa
1741 gtctttgaca gtgatgccat aattatcacc accaacctgg ccaacccagc accactggat
1801 tatgtcaact ttgaagcgtg ctcgagacgc attgatttcc tcgtgtacgc agaagcccct
1861 gaggtggaga aggcaaagcg cgacttccca ggtcaacctg acatgtggaa gaacgctttc
1921 agtcctgact tctcacacat aaaactgtca ttggctccac agggtggttt tgacaagaac
1981 ggcaacaccc cgcatggaaa aggggtcatg aagaccctca ccactggctc cctcatcgcc
2041 cgagcatcag ggttactcca tgagaggcta gatgaatatg aattgcaagg cccagccctc
2101 accactttca actttgaccg caacaagata ctcgctttta gacagcttgc tgctgaaaac
2161 aagtatgggc tgatggacac aatgagagtt ggaaaacagc tcaaggatgt caagactatg
2221 tcagacctca aacaagcact caagaacatc gcgatcaaga agtgccagat agtgtacaat
2281 ggtggcacct acacacttga ggctgatggc aagggcagtg tgaaagttga caaagtgcaa
2341 agtgccactg tgcagaccaa caatgaacta gccggtgccc tacaccacct aagatgcgct
2401 agaatcagat actatgttaa gtgcgtccag gaggcactgt attccatcat ccaaatcgct
2461 ggggctgcat tcgtcaccac gcgcatcgct aagcgcatga atatacagaa tctctggtcc
2521 aagccacagg tggaagacac agaagagatg gccaacaaag atggttgcct aaaacccaaa
2581 gatgatgaag agtttgtcgt ttcatccgac gacatcaaaa ctgagggcaa gaaagggaag
2641 aacaagtccg gccgtggcaa gaagcacaca gccttttcaa gtaaagggct cagtgatgag
2701 gagtacgatg agtacaagag aatcagagaa gaaaggaatg gtaagtactc catagaagag
2761 taccttcagg acagagacag gtactacgag gaggtggcca ttgctagggc aaccgaagag
2821 gacttctgtg aagaagaaga ggccaaaatc cggcagagga ttttcagacc aacaaggaaa
2881 caacgcaaag aagagagggc ttctctcggc ttggtcacag gttctgaaat caggaagaga
2941 aacccagaag acttcaaacc caagggaaag ctgtgggctg atgacgacag aagtgttgac
3001 tacaatgaga aactcaactt tgaggcccca ccaagcatct ggtcgcggat agtcaacttt
3061 ggttcaggct ggggcttctg ggtctccccc agtctgttta taacatcaac ccatgtcata
3121 ccccaaggtg caaaggagtt cttcggagtc cctatcaagc aaatccagat acacaaatca
3181 ggtgaattct gccgattgag attcccaaag ccaatcagaa ccgatgtgac gggcatgatt
3241 ctagaagaag gtgcgcccga ggggaccgtg gccacactgc tcatcaagag accaactgga
3301 gagctcatgc ctctggcagc cagaatgggg acccatgcaa ccatgaaaat tcaggggcgc
3361 acagttggag ggcaaatggg tatgctcctg acaggatcca acgccaagag catggaccta
3421 ggcacaacac caggcgactg cggctgcccc tacatctaca agagggggaa tgactacgtg
3481 gtcatagggg tccatacggc tgctgcccgt ggaggaaaca ctgtcatatg tgccacccag
3541 ggaagtgagg gagaggccac acttgaagga ggcgacagta aagggacata ctgtggcgcg
3601 ccaatcttgg gcccagggag cgctccgaag ctcagcacta agactaagtt ttggagatca
3661 tccacaacac cactcccacc tggcacctac gaaccagcct acctcggtgg caaagaccct
3721 agagtcaaag gtggcccttc attgcaacaa gttatgaggg accagctgaa gccattcaca
3781 gaacccagag gcaaaccacc aagaccaaat gtgttggaag ctgccaagaa aaccatcatc
3841 aatgtccttg agcaaacaat tgatccaccc caaaaatggt catttgcgca agcttgcgca
3901 tcccttgaca aaaccacctc cagcggccac ccgcaccaca tgcggaaaaa cgactgttgg
3961 aatggggagt ccttcacagg aaagttggct gaccaagcct ccaaggccaa ccttatgttt
4021 gaagagggaa agaacatgac tccagtctac acaggtgcac ttaaagatga gttggtaaag
4081 accgataaag tgtatggtaa ggtcaagaag aggcttctat ggggttcaga tctggcgacc
4141 atggtacggt gcgcccgagc ttttggaggc ctcatggatg aactcaaggc acactgtgtc
4201 acactccctg tcagagttgg tatgaacatg aatgaggatg gccccatcat cttcgagaag
4261 cactccagat atagatatca ttatgatgct gactattccc ggtgggactc aacacaacaa
4321 agggatgtgc tggcagcagc actagaaatc atggttaagt tctctccaga accacacctg
4381 gcccagatag ttgcagaaga cctcctttcc cctagcgtga tggatgtggg tgactttcaa
4441 atatcaataa gtgagggtct cccctctggg gtgccttgca cctcccagtg gaattccatc
4501 gcccactggc tcctcactct gtgtgcactc tctgaagtca cggacctgtc ccctgatatc
4561 attcaggcca actccctttt ctccttctat ggtgatgatg agattgtaag cacagatata
4621 aagttggacc cagagaggct aacagcaaaa ctcaaggagt acgggctgaa accaacccgc
4681 cccgacaaaa ctgaaggacc ccttgtcatc tctgaagacc tggatggtct gacattcctc
4741 cgaagaactg tgacccgtga tccagctggc tggtttggaa aattggaaca aagttcaatt
4801 cttaggcaaa tgtactggac caggggtccc aaccatgaag acccatttga aacaatgata
4861 ccacactccc aaagacccat acaattgatg tccttgctgg gcgaggctgc actccacggc
4921 ccggcattct acagcaaaat tagcaaatta gtcattgcag agttgaagga aggtggcatg
4981 gatttttacg tgcccagaca agaaccaatg ttcagatgga tgagattctc agatctgagc
5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga
5101 cgtcaaccca tctgatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggttat
5161 ggctctggag cccgttgttg gtgccgccat tgcggcacct gtagcgggcc aacaaaatgt
5221 aattgacccc tggattagaa acaattttgt acaagcccct ggtggagagt ttacagtatc
5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ttgggccctg atctaaatcc
5341 ctacttgtct cacttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt
5401 aattctcgcg gggaacgcgt tcaccgccgg gaaggtcata tttgcagcag tcccaccaaa
5461 tttcccaact gaaggcttga gccccagcca ggtcactatg ttcccccata tagtagtaga
5521 tgttaggcaa ctagaacctg tgttgattcc cttacccgac gttaggaata atttctatca
5581 ttacaatcaa tcaaatgacc ccaccattaa gttgatagca atgttgtata caccacttag
5641 ggctaataat gctggggatg atgtcttcac agtttcttgt cgggttctca cgagaccatc
5701 ccccgatttt gatttcatat ttctagtgcc acccacagtt gagtcaagaa ctaaaccatt
5761 ctctgtccca gttttgactg ttgaggagat gaccaattca agattcccca ttcctttgga
5821 aaagttgttc acgggtccca gcagtgcctt tgttgtccaa ccacaaaacg gtaggtgcac
5881 gactgatggc gtgctcctag gcaccaccca actgtctcct gtcaacatct gcacctttag
5941 aggagatgtc acccatatca caggtagtca taactataca atgaatttgg cttctcaaaa
6001 ttggagcaac tacgacccaa cagaagaaat cccagcccct ctagggactc cagactttgt
6061 ggggaagatt caaggcatgc tcacccaaac cacaaggaca gatggctcaa cacgcggcca
6121 caaagccaca gtgtacactg ggagcgccga ctttgctcca aaactgggta gagttcaatt
6181 tgaaactgac acaaacaatg attttgaggc taaccaaaac acaaagttca ccccagttgg
6241 tgtcatccaa gatggtggca ccactcatcg aaatgaaccc caacagtggg cgctcccaag
6301 ttactcaggc aggaacactc ctaatgtgca tctggccccc gctgtggccc ccacttttcc
6361 gggtgagcaa ctccttttct ttagatccac catgcccgga tgcagcgggt accccaacat
6421 ggatttggat tgtctgctcc cccaggaatg ggtgcagtac ttctaccagg aggcagcccc
6481 agcacaatct gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt
6541 tgaatgtaag cttcataaat caggctatgt tacagtggct cacactggcc aacatgattt
6601 ggttatcccc cccaatggtt attttaggtt tgattcctgg gtcaaccagt tttacacact
6661 tgcccccatg ggaaatggag cggggcgtag acgtgcacta taatggctgg agctttcttt
6721 gctggattgg catctgatgt ccttggctct ggacttggtt cccttatcaa tgctggggct
6781 ggggccatca accaaaaagt tgagtttgaa aataatagaa aattgcagca agcatccttc
6841 caatttagca gcaatctaca acaggcttcc tttcaacatg acaaagagat gctccaagca
6901 caaattgagg ctaccaaaag gttacaacag gaaatgatga gagttaagca ggcaatgctc
6961 ctagagggtg ggttctctga gacagatgca gcccgcgggg caatcaacgc ccctatgaca
7021 aaagccttgg actggagcgg gacaaggtac tgggctcctg atgctaggac tacaacatac
7081 aatgcaggcc gcttttccac cccccaacca tcgggggcgc tgccaggaag agctaatttt
7141 agggatgctg tccctgctcg gggttcctct agtaagtctt ctaattcttc tactgctact
7201 tctgtgtatt caaatcaaac aacttcaacg agacttggtt ctacagctgg ttctggtacc
7261 agtgtctcga gcttcccgtc aactgcaagg actaggagct gggttgagga ccaaagtagg
7321 aatttgtcac ctttcatgag gggggcccac aacatatcgt ttgtcacccc accatctagc
7381 aggtcctcta gccaaggcac agtctcaacc gtgcctaaag agattttgga ctcctggact
7441 ggcgctttca acacgcgcag gcagccactc ttcgctcaca ttcgtaagcg aggggagtca
7501 cgggtgtaa
//