Typing tool
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Typing tool
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Complete norovirus genomes
| MN996300 | GII.17 | |
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| GII.P17 |
ORF1: 1..5013
ORF2: 4994..6616
ORF3: 6616..7395
LOCUS MN996300 7395 bp RNA linear VRL 15-JUL-2020
DEFINITION Norovirus GII isolate SCD0162_3 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MN996300
VERSION MN996300.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7395)
AUTHORS Zhang,Z., Wang,D., Liu,D., Zhang,Z. and Wu,Q.
TITLE Whole Genome Analysis for Co-Infected Different Genotypes of Human
Norovirus
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7395)
AUTHORS Zhang,Z., Wang,D., Liu,D., Zhang,Z. and Wu,Q.
TITLE Direct Submission
JOURNAL Submitted (28-JAN-2020) School of Agriculture & Biology, Shanghai
Jiao Tong University, 800 Dongchuan Rd. Minhang Dist, Shanghai
200240, China
COMMENT ##Assembly-Data-START##
Assembly Method :: CLC genomics workbench v. 12
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7395
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="SCD0162_3"
/isolation_source="asal swab"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="China: Shanghai"
/collection_date="18-Feb-2018"
/note="genotype: GII.17[P17]"
gene <1..5013
/gene="ORF1"
CDS <1..5013
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QHQ73458.1"
/translation="MSVTFKKALGARSKQPPPGETKQIQKPPRPPTPELVKRIPPPPP
NGEDEPGIVYKVGEGVSGLPDLTTVVQPDAQNTAYSVPPLSQREVGEAKEPLPGSILE
MWDGEIYHYGLYVERGNVLGVHKPPAAISLAKIEITPLSLYWRVVYTPQYLIDPGTLK
NLSGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFKPYQDWNRKPLPTMD
EPKIKKAANAVLCALSSLFTRPIKDIIGNLRPLNILNILATCDWTFAGIVESLILLAE
LFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAVELVPVVMGGVGLVLGFTKEKIGKMLS
SAATTLRACKDLGSYGLEILKLVMKWFFPKKEEANELAMVRAIEDAVLDLEAIENNHM
TTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINALLARIAAARSLVHKAK
EELSSRQRPVVVMISGRPGIGKTHLARELAKKVASTLSGDQRIGLVPRNGVDHWDAYK
GERVVLWDDYGMSNPIQDALRLQELADTCPLTLNCDRIENKGKVFDSDAIIITTNLAN
PAPLDYVNFEACSRRIDFLVYADAPDIEKAKRDFPGQPDMWKDHFRPDFSHIKLQLAP
QGGFDKNGNTPHGKGVVKSLTIGSLIARASGLLHERMDEFELQGSDLPTFNFDRNKVA
AFRQLAAENKYGLMDTLRVGNQLKNVKTLDELKQAIKNISIKKCQIVYNGCTYTMESD
GRGKVVVEKVQNATVQTNNELVGALHHLRSARIRYYVKCFQEAIYSLLQIAGAAFVTS
RIVRRMNVSNLWSKPPIEEGDEPEDRGGCPKPRDEDDLTIDSRDIKVEGKKGKNKSGR
GKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEELAIAKATEEDFC
EEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDFKPKGKLWADDNRSVDY
NERIDFEAPPSVWSRIVNFGTGWGFWVSPSLFITSTHVIPKGITEAFGVPINQIQIHK
SGEFCRLRFPKPIRPDVSGMILEEGAPEGTVVSILIKRTTGELMPLAVRMGTHATMKI
QGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDFVVIGVHTAAARGGNTV
ICATQGSEGEATLEGGDNKGTYCGAPILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPA
YLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPNPNVLESAKKTIINVLEQTIDPPQ
KWSYAQACASLDKTTSSGYPHHVRKNDYWSGESFTGKLADQASKANLMYEEGKHMQPV
YTAALKDELVKTDKIYGKIKKRLLWGSDLSTMIRCARAFGGLMDEFKANCITLPVRVG
MNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLEAALEIMVRFSAEPQLAQIVA
EDLLSPSVVDVGDFKIAINEGLPSGVPCTSQWNSIAHWLLTLCALSEVTGLGPDIIQA
NSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLNGLTFLR
RTVTRDPAGWFGKLDQNSILRQLYWTRGPNHEDPSETMIPHAQRPVQLMALLGESSLH
GPSFYSKVSKLVISELKEGGMDFYVPRQESMFRWMRFSDLSTWEGDRNLAPSFVNEDG
VE"
mat_peptide <1..903
/gene="ORF1"
/product="p48"
mat_peptide 904..2001
/gene="ORF1"
/product="NTPase"
mat_peptide 2002..2538
/gene="ORF1"
/product="p22"
mat_peptide 2539..2937
/gene="ORF1"
/product="VPg"
mat_peptide 2938..3480
/gene="ORF1"
/product="Pro"
mat_peptide 3481..5010
/gene="ORF1"
/product="RdRp"
gene 4994..6616
/gene="ORF2"
CDS 4994..6616
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QHQ73459.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGSDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN
DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6616..7395
/gene="ORF3"
CDS 6616..7395
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QHQ73460.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSTYTQST
HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 atgtctgtca cctttaagaa agccctcggg gcgcggtcta aacaaccgcc cccgggagaa
61 acaaaacaaa tacaaaaacc accaaggcca ccgacaccgg aattggtgaa gagaatacct
121 ccacccccac ccaatggcga ggatgaacca gggatagtgt acaaggtggg agagggtgtg
181 tctgggctgc ccgacctgac aactgtggta caacctgacg cacaaaacac agcttatagt
241 gttcccccac ttagccagag agaagtcggc gaagctaaag aaccgctgcc tggctccatt
301 ctggaaatgt gggatggtga gatctaccac tatgggctgt atgttgagcg ggggaatgtg
361 ctcggagtac acaaaccacc cgctgcaata agccttgcca aaattgaaat aacaccgctg
421 tctctctact ggagagtggt ctacactccc cagtatttga tagatccagg aactcttaag
481 aacttgagtg gagagacttt cccatacacg gcctttgaca acaactgtta tgccttctgt
541 tgttgggtcc tagacctcaa cgactcctgg cttagcagga gaatgatcca aagaacaact
601 ggattcttca aaccttacca ggattggaac agaaaaccct taccaaccat ggatgaaccg
661 aaaatcaaga aggccgcgaa tgctgtccta tgcgctctct cctcactctt cactaggccc
721 attaaggaca tcattggaaa tcttagacca ctgaacattc ttaatatact ggcaacctgc
781 gattggactt ttgcaggcat agtggaatcc ttgatccttc ttgctgaact ctttggggtg
841 ttctggacac ccccagatgt gtctgcgatg attgctccct tactcggtga ctacgagatg
901 caaggccccg aagacctggc cgtggaactt gtgcccgtgg tgatgggagg agtaggtttg
961 gtgttaggat tcaccaaaga aaagatcggc aagatgcttt catcagctgc gaccacactt
1021 agggcctgca aggatctagg atcttatgga ttggagatac tcaaattggt catgaagtgg
1081 ttcttcccca agaaggagga ggctaacgaa ctagccatgg tgagagccat tgaggatgca
1141 gtcctggatt tggaggcaat agaaaacaat cacatgacca cccttctcaa ggacaaagac
1201 agcctggcca catacatgag gactcttgac ttggaagaag agaaagcaag gaaactgtca
1261 accaaatcgg cgtcacctga catcgtgggt acaataaacg cattattggc taggatagca
1321 gccgccaggt cactggtcca caaggctaag gaggagctct cgagcagaca gagacctgtt
1381 gttgtaatga tatcaggtag accaggtata ggaaagaccc atctggccag agagctagcc
1441 aagaaagttg cgtcaacact gtcaggcgac caaaggattg gactggtacc tagaaatggc
1501 gtcgaccatt gggacgccta caagggagaa agggtggttc tgtgggatga ttatggtatg
1561 agcaacccta tacaggacgc actgaggctc caagaattgg ctgacacctg tcctctgacc
1621 ctaaattgtg ataggattga aaacaaagga aaagtgttcg acagtgatgc cataattata
1681 acaaccaacc ttgcaaaccc agcaccacta gactatgtca actttgaggc ctgctctaga
1741 cgcatagact tcttggtgta tgcagacgca cctgacattg agaaggctaa gcgtgacttc
1801 cctggccaac cagatatgtg gaaagaccat ttcagaccag acttctcaca cattaaactt
1861 cagctggcac cacagggagg ttttgacaaa aatggcaaca ccccacatgg taaaggtgtg
1921 gtgaagtccc tgacgattgg ttctctgatc gccagggcct ccggcttgct ccacgagaga
1981 atggatgaat tcgagctcca aggctctgac ctgccaacct tcaattttga ccgcaacaaa
2041 gtcgccgcct tcagacaatt agcagctgaa aacaaatatg gtcttatgga cacactgagg
2101 gtcggcaacc aactgaaaaa tgttaagacc ctggatgagc tgaagcaggc cataaagaac
2161 atcagtatca agaagtgtca gatagtgtat aatggatgca cctatactat ggaatctgat
2221 gggaggggca aggttgtggt tgaaaaggta caaaacgcaa cagttcaaac caacaatgaa
2281 cttgtagggg cgctccacca cctgagatct gcaaggataa gatactatgt taaatgtttc
2341 caagaagcca tttactctct actccaaatt gctggtgcag ccttcgtcac ctcacgcatc
2401 gtgaggcgca tgaacgtgtc aaacctctgg tcgaagccac ccatcgagga aggtgatgag
2461 cctgaagaca gaggaggatg ccccaagccc agggatgaag atgacctcac tattgactct
2521 agagacatca aagtggaagg gaagaagggc aagaacaagt ctggccgggg caagaaacac
2581 acagccttct cttccaaggg cctcagtgat gaagagtacg atgagtacaa aagaatcaga
2641 gaggagagga atggtaaata ctcaatagag gaatacctcc aagataggga cagatactat
2701 gaagagcttg ccattgctaa ggccactgag gaggacttct gtgaggagga ggagatcaaa
2761 atccgccaga gaatcttccg acccaccagg aagcagcgga aagaggagag ggccacgctt
2821 gggcttgtca caggatcgga aatcagaaag aggaatccag atgactttaa accaaaagga
2881 aaattgtggg ctgatgacaa caggagcgtg gattacaatg agaggataga ttttgaggct
2941 cccccgagtg tttggtctag gatagtcaac tttggcacag gctggggatt ctgggtttct
3001 ccaagtctct ttataacttc aacacacgtc ataccaaaag gaatcactga ggcctttgga
3061 gtgcccataa accaaatcca aattcacaaa tctggagaat tttgccgctt gcggtttcca
3121 aagccaatta gaccagacgt gagtgggatg atcttggaag agggcgcccc tgaaggcact
3181 gttgtgtcta ttctcatcaa aaggacaaca ggggagctaa tgcctcttgc agtcagaatg
3241 gggactcatg ccacaatgaa aatccaaggt agaacggtgg gtggtcagat gggtatgctt
3301 ctcactggct caaatgctaa aagcatggac ctaggcacaa caccaggtga ctgcggatgt
3361 ccatacatat acaaaagggg caatgacttt gtggtcattg gggtgcacac tgcagcggct
3421 cgtggaggca acacggtcat atgtgccaca cagggaagtg aaggtgaagc cactcttgaa
3481 ggaggtgata acaagggtac atattgtgga gctcccattt tgggacctgg caatgcacca
3541 aaactgagca caaagacgaa attctggaga tcctctaacg caccgcttcc cccaggtact
3601 tatgaaccag cataccttgg tggaagagac ccgcgcgtga agggaggccc atctctgcaa
3661 caagttatga gagaccaact taaacctttt acagagccca gagggaagcc accaaaccca
3721 aacgtcttag agtcagcaaa gaagactatc atcaatgttc tggaacaaac cattgacccc
3781 cctcaaaagt ggtcatatgc ccaagcttgt gcatccctcg acaagacaac ctccagtgga
3841 tacccgcacc acgtccggaa gaatgactat tggagtggtg aatccttcac aggaaagctt
3901 gcagatcagg cttcaaaagc aaatctcatg tatgaggaag gcaagcacat gcaaccagtt
3961 tacaccgcag cactcaaaga cgagctcgtg aaaactgaca aaatttatgg caaaatcaag
4021 aaaagactcc tgtggggttc tgacctctcc acaatgattc gatgcgccag agcatttggt
4081 ggtctcatgg atgaattcaa agcaaattgt attacactcc ctgtcagagt tggtatgaat
4141 atgaatgaag atggtcccat aatatttgag aaacactcca ggtataggta ccactatgat
4201 gctgattact cccgttggga ctccacacaa cagcgggcag tgctggaagc ggcacttgaa
4261 atcatggtga gattttctgc tgaaccacag ctggcacaaa tagtggcaga ggacctgctg
4321 tcaccaagtg tggttgatgt gggcgatttc aaaatcgcta tcaatgaagg cctaccatct
4381 ggcgtgcctt gcacctcaca atggaattct attgcccact ggttgcttac cttgtgtgcc
4441 ctttctgaag tgacaggatt aggtcctgac atcatacaag ctaactccat gtactctttc
4501 tatggtgatg atgagattgt gagcacagac ataaaattgg acccagagaa attgaccgca
4561 aagctcaaag agtatggcct taaacccact cggcccgaca aaactgaggg gccgttggtg
4621 attagtgagg acctaaacgg gttgactttc ctccgccgaa cagtcacccg tgatccagca
4681 ggttggtttg gaaagttgga ccaaaactcc atcctcaggc agttgtactg gacaagagga
4741 cccaaccatg aagaccccag tgagaccatg ataccacacg cacaaagacc tgtgcagctc
4801 atggcactac taggagaatc ctccctacat ggaccctcat tttacagcaa ggttagcaaa
4861 ttagtcatat ctgaacttaa agagggagga atggattttt atgtgcccag acaagagtca
4921 atgttcagat ggatgaggtt ctcagatcta agcacatggg agggcgatcg caatctggct
4981 cccagttttg tgaatgaaga tggcgtcgaa tgacgccgct ccatctaatg atggtgctgc
5041 tggtctcgta ccagagggca acaacgagac ccttccccta gaaccagttg cgggcgcagc
5101 tatagccgca cccgtcactg gccaaaataa cataattgac ccctggatta gaacaaattt
5161 tgtgcaagca ccaaatggag agttcacagt atcacccaga aactctcctg gagaaatttt
5221 attaaactta gagttgggtc ctgatttgaa cccttatttg gctcatttgt caaggatgta
5281 caatgggtat gctggtggag tggaagttca ggttctcctg gcagggaacg cgttcactgc
5341 cggaaagatc ctcttcgccg ctgtcccgcc aaatttccca gtggaattct taagcccagc
5401 ccagatcaca atgctcccac atttaatagt agatgttagg actcttgaac caattatgat
5461 cccactccct gatgttagga atacattctt ccattatagt aaccagccga acagccgcat
5521 gagattagtg gctatgctct ataccccact taggtctaat ggctcaggtg atgatgtctt
5581 tactgtctct tgcagggttt tgactaggcc tactcctgat tttgagttca cttatctagt
5641 gccaccttct gttgaatcta aaactaagcc tttttccttg cctattttaa ccctttctga
5701 gcttacaaat tcgaggttcc cagttcccat cgattcgctt ttcaccgccc agaataacgt
5761 gttgcaggtg cagtgtcaaa atggcaggtg tacacttgat ggtgagttac aaggcacaac
5821 ccagttgctc ccatctggca tctgtgcatt cagaggacgg gtgacagcac aaattaacca
5881 acgtgacagg tggcacatgc aactgcaaaa cctcaatggt acaacatatg acccaactga
5941 tgatgtgcca gccccgctgg gtacacctga cttcaagggc gtcgtgtttg ggatggttag
6001 ccaaagaaat gtgggtagtg atgcgcctgg ctcaaccaga gcccaacagg cgtgggtttc
6061 aacctatagc ccccaatttg tccccaaatt aggttctgtc aatcttagaa ttagtgataa
6121 tgatgatttc caattccaac cgacaaaatt cacaccagtg ggcgtcaatg atgacgatga
6181 tggccacccg ttcagacaat gggaactacc aaactattca ggggagctta ccttgaatat
6241 gaatcttgcc cccccagttg ctccaaattt tcctggtgaa caattgttat tcttcagatc
6301 tttcgtgcca tgctcaggag gttacaacca aggtattata gattgtctta ttccccaaga
6361 atggatccaa cacttctatc aggaatcagc accctcccag tcagacgtgg ccctaatcag
6421 gtatgtcaac cccgatacgg gacgtacact gtttgaagca aaattgcaca gatctggtta
6481 tattactgtg gctcactctg gagactatcc tcttgttgtt ccggctaatg gacactttag
6541 atttgattct tgggtaaatc agttttactc actcgcccca atgggaactg ggaatgggcg
6601 taggagggct cagtaatggc tggggctttc attgcagggt tggcaggcga catgctcacg
6661 tcatctgtgg gctcccttgt gaacgcaggg gcaaacgcca tcaatcaaaa gatagacttt
6721 gaaaacaaca aacaactcca gtctgcttcc tttcagcatg ataaagagat gctccaagcg
6781 caggtgaggg caaccaagca gctgcaatct gaaatgatag ccctaaaaca gggggttttg
6841 gccgcaggcg gcttttcccc cactgatgca gcaaggggat ccattggtgc ccccatgaca
6901 aaggtgcttg actggtctgg cactcgatac tgggcgccca attccacaaa gacaactggc
6961 tattcgggac aattcacctc ttcacctgtg catatgtcta gcccaaatgc tccacaatca
7021 aaacctgcaa agcctaggtc tctagctcct tcctcttctt ctagcagtgt ctatagtacg
7081 tatactcaat ctactcattt gacatctggc tcttctagta atgcttcttc tgcctccaca
7141 aaattgacaa atttaagctc tggctcctct caaaacagaa cagcagagtg ggtaaatcaa
7201 cagagaagtc ttagcccttt catgagtggc gcacttaaca tctcacatgt cacgccaccc
7261 tcaagtaggg cttccagttc tgggacggtc tcgaccgtgc ccaaggaagt tttggactcc
7321 tggacgtctg cgtttaacac acacagacag ccgctcttcg cgcacctcag agtgaggggg
7381 gagtcacgtg tttag
//